LiteFold/PDB huggingface dataset:
PDB entry 7y98: Crystal structure of CYP109B4 from Bacillus Sonorensis in complex with Testosterone
Classification: OXIDOREDUCTASE
Source organism: Bacillus sonorensis L12
Experimental method: X-RAY DIFFRACTION
Resolution: 2.27 Å
Deposited: 2022-06-24
Authors: Shen, P.P., Huang, J.-W., Li, X., Liu, W.D., Chen, C.-C., Guo, R.-T.
PDB entry 7y99: Crystal Structure Analysis of cp2 bound BCLxl
Classification: APOPTOSIS
Source organism: Mus musculus; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 1.9 Å
Deposited: 2022-06-24
Authors: Li, F.W., Liu, C., Wu, C.L., Wu, D.L.
PDB entry 7y9a: Crystal structure of sDscam Ig1-2 domains, isoform beta2v6
Classification: CELL ADHESION
Source organism: Chelicerata
Experimental method: X-RAY DIFFRACTION
Resolution: 2.51 Å
Deposited: 2022-06-24
Authors: Chen, Q., Yu, Y., Cheng, J.
PDB entry 7y9b: Crystal structure of the membrane (M) protein of a SARS-COV-2-related coronavirus
Classification: MEMBRANE PROTEIN
Source organism: Pipistrellus bat coronavirus HKU5
Experimental method: X-RAY DIFFRACTION
Resolution: 3.214 Å
Deposited: 2022-06-24
Authors: Wang, X., Sun, Z., Zhou, X.
PDB entry 7y9c: Crystal structure of METTL9 in complex with SLC39A5 peptide and SAH
Classification: TRANSFERASE
Source organism: Homo sapiens; synthetic construct
Experimental method: X-RAY DIFFRACTION
Resolution: 2.1 Å
Deposited: 2022-06-24
Authors: Xie, H., Wang, X., Xu, C.
PDB entry 7y9g: Crystal structure of diterpene synthase VenA from Streptomyces venezuelae ATCC 15439 in complex with pyrophosphate
Classification: LYASE
Source organism: Streptomyces venezuelae
Experimental method: X-RAY DIFFRACTION
Resolution: 2.18 Å
Deposited: 2022-06-24
Authors: Zhang, L.L., Xie, Z.Z., Huang, J.-W., Hu, Y.C., Liu, W.D., Yang, Y., Chen, C.-C., Guo, R.-T.
PDB entry 7y9h: Crystal structure of diterpene synthase VenA from Streptomyces venezuelae ATCC 15439
Classification: LYASE
Source organism: Streptomyces venezuelae
Experimental method: X-RAY DIFFRACTION
Resolution: 2.03 Å
Deposited: 2022-06-24
Authors: Zhang, L.L., Xie, Z.Z., Huang, J.-W., Hu, Y.C., Liu, W.D., Yang, Y., Chen, C.-C., Guo, R.-T.
PDB entry 7y9i: Complex structure of AtYchF1 with ppGpp
Classification: HYDROLASE
Source organism: Arabidopsis thaliana
Experimental method: X-RAY DIFFRACTION
Resolution: 2.07 Å
Deposited: 2022-06-24
Authors: Li, X., Chen, Z.
PDB entry 7y9j: Crystal structure of P450 BM3-TMK from Bacillus megaterium in complex with 5-nitro-1,2-benzisoxazole
Classification: OXIDOREDUCTASE
Source organism: Priestia megaterium
Experimental method: X-RAY DIFFRACTION
Resolution: 1.83 Å
Deposited: 2022-06-24
Authors: Wang, Q., Zhang, L.L., Liu, W.D., Huang, J.-W., Yang, Y., Chen, C.-C., Guo, R.-T.
PDB entry 7y9k: Crystal structure of P450 BM3-TMK from Bacillus megaterium
Classification: OXIDOREDUCTASE
Source organism: Priestia megaterium
Experimental method: X-RAY DIFFRACTION
Resolution: 2.23 Å
Deposited: 2022-06-25
Authors: Wang, Q., Zhang, L.L., Liu, W.D., Huang, J.-W., Yang, Y., Chen, C.-C., Guo, R.-T.
PDB entry 7y9l: Crystal structure of P450 BM3-2F from Bacillus megaterium in complex with 2-Hydroxy-5-Nitrobenzonitrile
Classification: OXIDOREDUCTASE
Source organism: Priestia megaterium
Experimental method: X-RAY DIFFRACTION
Resolution: 1.76 Å
Deposited: 2022-06-25
Authors: Wang, Q., Zhang, L.L., Liu, W.D., Huang, J.-W., Yang, Y., Chen, C.-C., Guo, R.-T.
PDB entry 7y9m: Crystal structure of P450 BM3-2F from Bacillus megaterium
Classification: OXIDOREDUCTASE
Source organism: Priestia megaterium
Experimental method: X-RAY DIFFRACTION
Resolution: 2.16 Å
Deposited: 2022-06-25
Authors: Wang, Q., Zhang, L.L., Liu, W.D., Huang, J.-W., Yang, Y., Chen, C.-C., Guo, R.-T.
PDB entry 7y9n: an engineered 5-helix bundle derived from SARS-CoV-2 S2 in complex with HR2P
Classification: VIRUS PROTEIN/INHIBITOR
Source organism: Severe acute respiratory syndrome coronavirus 2; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 1.885 Å
Deposited: 2022-06-25
Authors: Lu, G.W., Lin, X., Guo, L.Y., Lin, S.
PDB entry 7y9o: Crystal structure of a CYP109B4 variant from Bacillus sonorensis
Classification: OXIDOREDUCTASE
Source organism: Bacillus sonorensis L12
Experimental method: X-RAY DIFFRACTION
Resolution: 1.84 Å
Deposited: 2022-06-25
Authors: Shen, P.P., Huang, J.-W., Li, X., Liu, W.D., Chen, C.-C., Guo, R.-T.
PDB entry 7y9p: Xylitol dehydrogenase S96C/S99C/Y102C mutant(thermostabilized form) from Pichia stipitis
Classification: OXIDOREDUCTASE
Source organism: Scheffersomyces stipitis
Experimental method: X-RAY DIFFRACTION
Resolution: 2.8 Å
Deposited: 2022-06-25
Authors: Yoshiwara, K., Watanabe, Y., Watanabe, S.
PDB entry 7y9s: Cryo-EM structure of apo SARS-CoV-2 Omicron spike protein (S-2P-GSAS)
Classification: VIRAL PROTEIN
Source organism: Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 3 Å
Deposited: 2022-06-26
Authors: Zhao, Z.N., Xie, Y.F., Qi, J.X., Gao, G.F.
PDB entry 7y9t: Structure of the auxin exporter PIN1 in Arabidopsis thaliana in the apo state
Classification: TRANSPORT PROTEIN
Source organism: Arabidopsis thaliana; Escherichia coli
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.1 Å
Deposited: 2022-06-26
Authors: Sun, L., Liu, X., Yang, Z., Xia, J.
PDB entry 7y9u: Structure of the auxin exporter PIN1 in Arabidopsis thaliana in the NPA-bound state
Classification: TRANSPORT PROTEIN
Source organism: Arabidopsis thaliana; Escherichia coli
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.3 Å
Deposited: 2022-06-26
Authors: Sun, L., Liu, X., Yang, Z., Xia, J.
PDB entry 7y9v: Structure of the auxin exporter PIN1 in Arabidopsis thaliana in the IAA-bound state
Classification: TRANSPORT PROTEIN
Source organism: Arabidopsis thaliana; Escherichia coli
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.2 Å
Deposited: 2022-06-26
Authors: Sun, L., Liu, X., Yang, Z., Xia, J.
PDB entry 7y9x: Structure of the Cas7-11-Csx29-guide RNA complex
Classification: RNA BINDING PROTEIN/RNA
Source organism: Desulfonema ishimotonii; SYNTHETIC CONSTRUCT
Experimental method: ELECTRON MICROSCOPY
Resolution: 2.49 Å
Deposited: 2022-06-26
Authors: Kato, K., Okazaki, S., Ishikawa, J., Isayama, Y., Nishizawa, T., Nishimasu, H.
PDB entry 7y9y: Structure of the Cas7-11-Csx29-guide RNA-target RNA (no PFS) complex
Classification: RNA BINDING PROTEIN/RNA
Source organism: Desulfonema ishimotonii; SYNTHETIC CONSTRUCT
Experimental method: ELECTRON MICROSCOPY
Resolution: 2.77 Å
Deposited: 2022-06-26
Authors: Kato, K., Okazaki, S., Ishikawa, J., Isayama, Y., Nishizawa, T., Nishimasu, H.
PDB entry 7y9z: Cryo-EM structure of SARS-CoV-2 Omicron spike protein (S-6P-RRAR) in complex with human ACE2 ectodomain (one-RBD-up state)
Classification: VIRAL PROTEIN/HYDROLASE
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 2.85 Å
Deposited: 2022-06-26
Authors: Gao, G.F., Qi, J.X., Liu, S., Zhao, Z.N.
PDB entry 7ya0: Cryo-EM structure of hACE2-bound SARS-CoV-2 Omicron spike protein with L371S, P373S and F375S mutations (S-6P-RRAR)
Classification: VIRAL PROTEIN/HYDROLASE
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.1 Å
Deposited: 2022-06-26
Authors: Zhao, Z.N., Xie, Y.F., Qi, J.X., Gao, G.F.
PDB entry 7ya1: Cryo-EM structure of hACE2-bound SARS-CoV-2 Omicron spike protein with L371S, P373S and F375S mutations (local refinement)
Classification: HYDROLASE/VIRAL PROTEIN
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.11 Å
Deposited: 2022-06-27
Authors: Zhao, Z.N., Xie, Y.F., Qi, J.X., Gao, G.F.
PDB entry 7ya2: Crystal structure of capsular polysaccharide synthesis enzyme CapG from Staphylococcus aureus
Classification: ISOMERASE
Source organism: Staphylococcus aureus
Experimental method: X-RAY DIFFRACTION
Resolution: 3.2 Å
Deposited: 2022-06-27
Authors: Chen, Y., Wang, Y.C.
PDB entry 7ya3: Formate dehydrogenase from Novosphingobium sp. AP12 with NADP and Azide
Classification: OXIDOREDUCTASE
Source organism: Novosphingobium sp. AP12
Experimental method: X-RAY DIFFRACTION
Resolution: 3 Å
Deposited: 2022-06-27
Authors: Kim, S., Kim, K.-J.
PDB entry 7ya4: Formate dehydrogenase from Novosphingobium sp. AP12 with NAD and Azide
Classification: OXIDOREDUCTASE
Source organism: Novosphingobium sp. AP12
Experimental method: X-RAY DIFFRACTION
Resolution: 1.8 Å
Deposited: 2022-06-27
Authors: Kim, S., Kim, K.-J.
PDB entry 7ya5: Crystal structure analysis of cp1 bound BCL2/G101V
Classification: APOPTOSIS
Source organism: Homo sapiens; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 1.85 Å
Deposited: 2022-06-27
Authors: Li, F.W., Liu, C., Wu, C.L., Wu, D.L.
PDB entry 7ya7: The crystal structure of IpaH1.4 LRR domain
Classification: LIGASE
Source organism: Shigella flexneri 5a
Experimental method: X-RAY DIFFRACTION
Resolution: 1.4 Å
Deposited: 2022-06-27
Authors: Hiragi, K., Nishide, A., Takagi, K., Iwai, K., Kim, M., Mizushima, T.
PDB entry 7ya8: The crystal structure of IpaH2.5 LRR domain
Classification: LIGASE
Source organism: Shigella flexneri 5a
Experimental method: X-RAY DIFFRACTION
Resolution: 3.4 Å
Deposited: 2022-06-27
Authors: Hiragi, K., Nishide, A., Takagi, K., Iwai, K., Kim, M., Mizushima, T.
PDB entry 7ya9: Fis1 (Mitochondrial fission 1 protein)
Classification: APOPTOSIS
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 1.7 Å
Deposited: 2022-06-27
Authors: Duc, N.M., Bong, S.M., Lee, B.I.
PDB entry 7yaa: Crystal structure analysis of cp3 bound BCLxl
Classification: APOPTOSIS
Source organism: Homo sapiens; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 1.4 Å
Deposited: 2022-06-27
Authors: Li, F.W., Liu, C., Wu, C.L., Wu, D.L.
PDB entry 7yab: Solution structure of zinc finger domain 1 of human ZFAND1
Classification: METAL BINDING PROTEIN
Source organism: Homo sapiens
Experimental method: SOLUTION NMR
Deposited: 2022-06-27
Authors: Fang, P.J., Lai, C.H., Ko, K.T., Chang, C.F., Hsu, S.T.D.
PDB entry 7yac: Paltusotine-bound SSTR2-Gi complex
Classification: SIGNALING PROTEIN
Source organism: Homo sapiens; Mus musculus
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.24 Å
Deposited: 2022-06-27
Authors: Zhao, J., Shao, Z.
PDB entry 7yad: Cryo-EM structure of S309-RBD-RBD-S309 in the S309-bound Omicron spike protein (local refinement)
Classification: IMMUNE SYSTEM/VIRAL PROTEIN
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 2.66 Å
Deposited: 2022-06-27
Authors: Zhao, Z.N., Xie, Y.F., Qi, J.X., Gao, F.
PDB entry 7yae: Octreotide-bound SSTR2-Gi complex
Classification: SIGNALING PROTEIN
Source organism: Homo sapiens; Mus musculus; SYNTHETIC CONSTRUCT
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.37 Å
Deposited: 2022-06-28
Authors: Zhao, J., Shao, Z.
PDB entry 7yag: CryoEM structure of SPCA1a in E1-Ca-AMPPCP state subclass 1
Classification: TRANSPORT PROTEIN
Source organism: Homo sapiens; Vicugna pacos
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.1 Å
Deposited: 2022-06-28
Authors: Chen, Z., Watanabe, S., Inaba, K.
PDB entry 7yah: CryoEM structure of SPCA1a in E1-Ca-AMPPCP state subclass 2
Classification: TRANSPORT PROTEIN
Source organism: Homo sapiens; Vicugna pacos
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.12 Å
Deposited: 2022-06-28
Authors: Chen, Z., Watanabe, S., Inaba, K.
PDB entry 7yai: CryoEM structure of SPCA1a in E1-Ca-AMPPCP state subclass 3
Classification: TRANSPORT PROTEIN
Source organism: Homo sapiens; Vicugna pacos
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.14 Å
Deposited: 2022-06-28
Authors: Chen, Z., Watanabe, S., Inaba, K.
PDB entry 7yaj: CryoEM structure of SPCA1a in E1-Mn-AMPPCP state subclass 1
Classification: TRANSPORT PROTEIN
Source organism: Homo sapiens; Vicugna pacos
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.16 Å
Deposited: 2022-06-28
Authors: Chen, Z., Watanabe, S., Inaba, K.
PDB entry 7yam: CryoEM structure of SPCA1a in E2P state
Classification: TRANSPORT PROTEIN
Source organism: Homo sapiens
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.3 Å
Deposited: 2022-06-28
Authors: Chen, Z., Watanabe, S., Inaba, K.
PDB entry 7yan: UDP-glucuronosyltransferase2B17 C-terminal domain
Classification: TRANSFERASE
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 2.5 Å
Deposited: 2022-06-28
Authors: Wang, C.Y., Zhang, L.
PDB entry 7yao: Crystal structure of a bright green fluorescent protein (oxStayGold) in jellyfish Cytaeis uchidae from Biortus
Classification: FLUORESCENT PROTEIN
Source organism: Cytaeis uchidae
Experimental method: X-RAY DIFFRACTION
Resolution: 1.5 Å
Deposited: 2022-06-28
Authors: Wu, J., Wang, F., Gui, W., Cheng, W., Yang, Y.
PDB entry 7yaq: Phloem lectin (PP2)C34S mutant
Classification: SUGAR BINDING PROTEIN
Source organism: Cucumis sativus
Experimental method: X-RAY DIFFRACTION
Resolution: 1.853 Å
Deposited: 2022-06-28
Authors: Sivaji, N., Bobbili, K.B., Priya, B., Suguna, K., Surolia, A.
PDB entry 7yar: ZIKV_Fab_G9E
Classification: VIRUS
Source organism: Homo sapiens; Zika virus ZIKV/H. sapiens/FrenchPolynesia/10087PF/2013
Experimental method: ELECTRON MICROSCOPY
Resolution: 5.9 Å
Deposited: 2022-06-28
Authors: Shu, B., Thiam-Seng, N., Lok, S.
PDB entry 7yas: HYDROXYNITRILE LYASE, LOW TEMPERATURE NATIVE STRUCTURE
Classification: LYASE
Source organism: Hevea brasiliensis
Experimental method: X-RAY DIFFRACTION
Resolution: 1.75 Å
Deposited: 1999-03-15
Authors: Zuegg, J., Wagner, U.G., Gugganig, M., Kratky, C.
PDB entry 7yat: CryoEM tetra protofilament structure of the hamster prion 108-144 fibril
Classification: PROTEIN FIBRIL
Experimental method: ELECTRON MICROSCOPY
Resolution: 2.2 Å
Deposited: 2022-06-28
Authors: Chen, E.H.-L., Kao, S.-W., Lee, C.-H., Huang, J.Y.C., Chen, R.P.-Y., Wu, K.-P.
PDB entry 7yav: Crystal structure of Diels-Alderase MaDA1
Classification: PLANT PROTEIN
Source organism: Morus alba
Experimental method: X-RAY DIFFRACTION
Resolution: 2.1 Å
Deposited: 2022-06-28
Authors: Lei, X.G., Chen, R.C., Du, X.X., Yang, J., Fan, J.P., Guo, N.X., Ding, Q.
PDB entry 7yaw: Crystal structure of ZAK in complex with compound YH-180
Classification: STRUCTURAL PROTEIN/INHIBITOR
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 2.1 Å
Deposited: 2022-06-28
Authors: Kong, L.L., Yun, C.H.
PDB entry 7yax: HYDROXYNITRILE LYASE FROM THE MILLIPEDE,
Classification: LYASE
Source organism: Oxidus gracilis
Experimental method: X-RAY DIFFRACTION
Resolution: 2.01 Å
Deposited: 2022-06-28
Authors: Chaikaew, S., Watanabe, Y., Zheng, D., Motojima, F., Asano, Y.
PDB entry 7yaz: Crystal structure of ZAK in complex with compound YH-186
Classification: STRUCTURAL PROTEIN/INHIBITOR
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 2.54 Å
Deposited: 2022-06-28
Authors: Kong, L.L., Yun, C.H.
PDB entry 7yb1: Crystal Structure of anthrol reductase (CbAR) in complex with NADP+
Classification: OXIDOREDUCTASE
Source organism: Cercospora sp. JNU001
Experimental method: X-RAY DIFFRACTION
Resolution: 3.3 Å
Deposited: 2022-06-28
Authors: Hou, X.D., Rao, Y.J.
PDB entry 7yb2: Crystal Structure of anthrol reductase (CbAR) in complex with NADP+ and emodin
Classification: OXIDOREDUCTASE
Source organism: Cercospora sp. JNU001
Experimental method: X-RAY DIFFRACTION
Resolution: 1.85 Å
Deposited: 2022-06-28
Authors: Hou, X.D., Rao, Y.J.
PDB entry 7yb3: SufS with D-cysteine for 1 min
Classification: BIOSYNTHETIC PROTEIN
Source organism: Bacillus subtilis subsp. subtilis str. 168
Experimental method: X-RAY DIFFRACTION
Resolution: 1.8 Å
Deposited: 2022-06-28
Authors: Nakamura, R., Fujishiro, T.
PDB entry 7yb4: Solution structure of homeodomain of EXTRADENTICLE
Classification: DNA BINDING PROTEIN
Source organism: Drosophila melanogaster
Experimental method: SOLUTION NMR
Deposited: 2022-06-28
Authors: Acharya, B., Basak, A.J., Lee, W., De, S.
PDB entry 7yb7: anti-apoptotic protein BCL-2-M12
Classification: APOPTOSIS
Source organism: Homo sapiens; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 2.2 Å
Deposited: 2022-06-29
Authors: Li, F.W., Liu, C., Wu, D.L.
PDB entry 7yb8: Aspartyl/Asparaginyl beta-hydroxylase (AspH) oxygenase and TPR domains in complex with D-2-hydroxyglutarate and factor X-derived peptide (39mer-4Ser)
Classification: OXIDOREDUCTASE
Source organism: Homo sapiens; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 1.98 Å
Deposited: 2022-06-29
Authors: Nakashima, Y., Brewitz, L., Schofield, C.J.
PDB entry 7yb9: Aspartyl/Asparaginyl beta-hydroxylase (AspH) oxygenase and TPR domains in complex with L-2-hydroxyglutarate and factor X-derived peptide (39mer-4Ser)
Classification: OXIDOREDUCTASE
Source organism: Homo sapiens; synthetic construct
Experimental method: X-RAY DIFFRACTION
Resolution: 1.54 Å
Deposited: 2022-06-29
Authors: Nakashima, Y., Brewitz, L., Schofield, C.J.
PDB entry 7yba: Aspartyl/Asparaginyl beta-hydroxylase (AspH) oxygenase and TPR domains in complex with D-4-hydroxy-2-oxoglutarate
Classification: OXIDOREDUCTASE
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 1.86 Å
Deposited: 2022-06-29
Authors: Nakashima, Y., Brewitz, L., Schofield, C.J.
PDB entry 7ybb: Aspartyl/Asparaginyl beta-hydroxylase (AspH) oxygenase and TPR domains in complex with D-4-hydroxy-2-oxoglutarate and factor X-derived peptide (39mer-4Ser)
Classification: OXIDOREDUCTASE
Source organism: Homo sapiens; synthetic construct
Experimental method: X-RAY DIFFRACTION
Resolution: 1.68 Å
Deposited: 2022-06-29
Authors: Nakashima, Y., Brewitz, L., Schofield, C.J.
PDB entry 7ybc: Aspartyl/Asparaginyl beta-hydroxylase (AspH) oxygenase and TPR domains in complex with (S)-4-hydroxy-4-methyl-2-oxoglutarate and factor X-derived peptide (39mer-4Ser)
Classification: OXIDOREDUCTASE
Source organism: Homo sapiens; synthetic construct
Experimental method: X-RAY DIFFRACTION
Resolution: 1.84 Å
Deposited: 2022-06-29
Authors: Nakashima, Y., Brewitz, L., Schofield, C.J.
PDB entry 7ybd: Crystal structure of sliding DNA clamp of Clostridioides difficile
Classification: DNA BINDING PROTEIN
Source organism: Clostridioides difficile
Experimental method: X-RAY DIFFRACTION
Resolution: 2.13 Å
Deposited: 2022-06-29
Authors: Hishiki, A., Okazaki, S., Hara, K., Hashimoto, H.
PDB entry 7ybf: Crystal structure of inner membrane protein Sad1 in complex with histone H2A-H2B
Classification: MEMBRANE PROTEIN
Source organism: Schizosaccharomyces pombe
Experimental method: X-RAY DIFFRACTION
Resolution: 2.15 Å
Deposited: 2022-06-29
Authors: Sun, W., Hu, C., Chen, Y.
PDB entry 7ybg: Crystal structure of the SARS-CoV-2 papain-like protease (C111S mutant)
Classification: VIRAL PROTEIN
Source organism: Severe acute respiratory syndrome coronavirus 2
Experimental method: X-RAY DIFFRACTION
Resolution: 1.9 Å
Deposited: 2022-06-29
Authors: Zeng, R., Lei, J.
PDB entry 7ybh: SARS-CoV-2 lambda variant spike
Classification: VIRAL PROTEIN
Source organism: Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.5 Å
Deposited: 2022-06-29
Authors: Wang, X., Fu, W.
PDB entry 7ybi: SARS-CoV-2 Mu variant spike (open state)
Classification: VIRAL PROTEIN
Source organism: Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 4.1 Å
Deposited: 2022-06-29
Authors: Wang, X., Fu, W.
PDB entry 7ybj: SARS-CoV-2 Mu variant spike(close state)
Classification: VIRAL PROTEIN
Source organism: Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.73 Å
Deposited: 2022-06-29
Authors: Wang, X., Fu, W.
PDB entry 7ybk: SARS-CoV-2 B.1.620 variant spike (open state)
Classification: VIRAL PROTEIN
Source organism: Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.9 Å
Deposited: 2022-06-29
Authors: Wang, X., Fu, W.
PDB entry 7ybl: SARS-CoV-2 B.1.620 variant spike (close state)
Classification: VIRAL PROTEIN
Source organism: Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.6 Å
Deposited: 2022-06-29
Authors: Wang, X., Fu, W.
PDB entry 7ybm: SARS-CoV-2 C.1.2 variant spike (Close state)
Classification: VIRAL PROTEIN
Source organism: Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.45 Å
Deposited: 2022-06-29
Authors: Wang, X., Fu, W.
PDB entry 7ybn: SARS-CoV-2 C.1.2 variant spike (Open state)
Classification: VIRAL PROTEIN
Source organism: Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.82 Å
Deposited: 2022-06-29
Authors: Wang, X., Fu, W.
PDB entry 7ybo: Crystal structure of FGFR4 kinase domain with 10z
Classification: TRANSFERASE/INHIBITOR
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 2.307 Å
Deposited: 2022-06-29
Authors: Chen, X.J., Lin, Q.M., Chen, Y.H.
PDB entry 7ybp: Crystal structure of FGFR4(V550L) kinase domain with 10z
Classification: TRANSFERASE/INHIBITOR
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 2.243 Å
Deposited: 2022-06-29
Authors: Chen, X.J., Lin, Q.M., Chen, Y.H.
PDB entry 7ybr: Crystal structure of human transthyretin variant A97S complexed with Tolcapone
Classification: TRANSPORT PROTEIN
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 1.71 Å
Deposited: 2022-06-29
Authors: Wang, Y.S., Huang, C.H., Tzeng, S.R.
PDB entry 7ybu: Human propionyl-coenzyme A carboxylase
Classification: CYTOSOLIC PROTEIN
Source organism: Homo sapiens
Experimental method: ELECTRON MICROSCOPY
Resolution: 2.2 Å
Deposited: 2022-06-29
Authors: Su, J.Y., Liu, D.S.
PDB entry 7ybx: Crystal structure of FGFR4(V550M) kinase domain with 10z
Classification: TRANSFERASE/INHIBITOR
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 2.233 Å
Deposited: 2022-06-30
Authors: Chen, X.J., Lin, Q.M., Chen, Y.H.
PDB entry 7yc0: Acetylesterase (LgEstI) W.T.
Classification: HYDROLASE
Source organism: Lactococcus garvieae subsp. garvieae
Experimental method: X-RAY DIFFRACTION
Resolution: 2 Å
Deposited: 2022-06-30
Authors: Do, H., Lee, J.H.
PDB entry 7yc1: Crystal structure of FGFR4 kinase domain with 10d
Classification: TRANSFERASE/INHIBITOR
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 2.535 Å
Deposited: 2022-06-30
Authors: Chen, X.J., Lin, Q.M., Chen, Y.H.
PDB entry 7yc2: Crystal structure of auxiliary protein in complex with human protein
Classification: VIRAL PROTEIN
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus 2
Experimental method: X-RAY DIFFRACTION
Resolution: 2.9 Å
Deposited: 2022-06-30
Authors: Gao, X., Cui, S.
PDB entry 7yc3: Crystal structure of FGFR4 kinase domain with 10t
Classification: TRANSFERASE/INHIBITOR
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 1.987 Å
Deposited: 2022-06-30
Authors: Chen, X.J., Lin, Q.M., Chen, Y.H.
PDB entry 7yc4: Acetylesterase (LgEstI) F207A
Classification: HYDROLASE
Source organism: Lactococcus garvieae subsp. garvieae
Experimental method: X-RAY DIFFRACTION
Resolution: 2.1 Å
Deposited: 2022-06-30
Authors: Do, H., Lee, J.H.
PDB entry 7yc5: Cryo-EM structure of SARS-CoV-2 spike in complex with K202.B bispecific antibody
Classification: VIRAL PROTEIN/IMMUNE SYSTEM
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.1 Å
Deposited: 2022-06-30
Authors: Yoo, Y., Cho, H.S.
PDB entry 7yc6: Crystal structure of D110P mutant of GATase subunit of Methanocaldococcus jannaschii GMP synthetase
Classification: TRANSFERASE
Source organism: Methanocaldococcus jannaschii
Experimental method: X-RAY DIFFRACTION
Resolution: 2.4 Å
Deposited: 2022-06-30
Authors: Chandrashekarmath, A., Bellur, A.
PDB entry 7yc7: Dark, fully reduced structure of the MmCPDII-DNA complex as produced at SwissFEL
Classification: DNA BINDING PROTEIN
Source organism: Methanosarcina mazei; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 1.95 Å
Deposited: 2022-07-01
Authors: Maestre-Reyna, M., Wang, P.-H., Nango, E., Hosokawa, Y., Saft, M., Furrer, A., Yang, C.-H., Ngura Putu, E.P.G., Wu, W.-J., Emmerich, H.-J., Engilberge, S., Caramello, N., Wranik, M., Glover, H.L., Franz-Badur, S., Wu, H.-Y., Lee, C.-C., Huang, W.-C., Huang, K.-F., Chang, Y.-K., Liao, J.-H., Weng, J.-H., Gad, W., Chang, C.-W., Pang, A.H., Gashi, D., Beale, E., Ozerov, D., Milne, C., Cirelli, C., Bacellar, C., Sugahara, M., Owada, S., Joti, Y., Yamashita, A., Tanaka, R., Tanaka, T., Luo, F.J., Tono, K., Kiontke, S., Spadaccini, R., Royant, A., Yamamoto, J., Iwata, S., Standfuss, J., Essen, L.-O., Bessho, Y., Tsai, M.-D.
PDB entry 7yc8: Cryo-EM structure of Tetrahymena ribozyme conformation 1 undergoing the first-step self-splicing
Classification: RNA
Source organism: Tetrahymena
Experimental method: ELECTRON MICROSCOPY
Resolution: 4.14 Å
Deposited: 2022-07-01
Authors: Zhang, X., Li, S., Pintilie, G., Palo, M.Z., Zhang, K.
PDB entry 7yc9: Co-crystal structure of BTK kinase domain with inhibitor
Classification: ANTITUMOR PROTEIN
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 1.4 Å
Deposited: 2022-07-01
Authors: Zhou, X.
PDB entry 7yca: Cryo-EM structure of the PSI-LHCI-Lhcp supercomplex from Ostreococcus tauri
Classification: PHOTOSYNTHESIS
Source organism: Ostreococcus tauri
Experimental method: ELECTRON MICROSCOPY
Resolution: 2.94 Å
Deposited: 2022-07-01
Authors: Shan, J., Sheng, X., Ishii, A., Watanabe, A., Song, C., Murata, K., Minagawa, J., Liu, Z.
PDB entry 7ycb: HYDROXYNITRILE LYASE FROM THE MILLIPEDE
Classification: LYASE
Source organism: Oxidus gracilis
Experimental method: X-RAY DIFFRACTION
Resolution: 2.01 Å
Deposited: 2022-07-01
Authors: Chaikaew, S., Watanabe, Y., Zheng, D., Motojima, F., Asano, Y.
PDB entry 7ycc: KRas G12C in complex with Compound 5c
Classification: ONCOPROTEIN/INHIBITOR
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 1.79 Å
Deposited: 2022-07-01
Authors: Amano, Y.
PDB entry 7ycd: HYDROXYNITRILE LYASE FROM THE MILLIPEDE, Oxidus gracilis bound with (R)-(+)-ALPHA-HYDROXYBENZENE-ACETONITRILE
Classification: LYASE
Source organism: Oxidus gracilis
Experimental method: X-RAY DIFFRACTION
Resolution: 2.01 Å
Deposited: 2022-07-01
Authors: Chaikaew, S., Watanabe, Y., Zheng, D., Motojima, F., Asano, Y.
PDB entry 7yce: KRas G12C in complex with Compound 7b
Classification: ONCOPROTEIN/inhibitor
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 1.8 Å
Deposited: 2022-07-01
Authors: Amano, Y.
PDB entry 7ycf: HYDROXYNITRILE LYASE FROM THE MILLIPEDE, Oxidus gracilis IN ACETONITRILE
Classification: LYASE
Source organism: Oxidus gracilis
Experimental method: X-RAY DIFFRACTION
Resolution: 2.01 Å
Deposited: 2022-07-01
Authors: Chaikaew, S., Watanabe, Y., Zheng, D., Motojima, F., Asano, Y.
PDB entry 7ycg: Cryo-EM structure of Tetrahymena ribozyme conformation 2 undergoing the first-step self-splicing
Classification: RNA
Source organism: Tetrahymena; SYNTHETIC CONSTRUCT
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.18 Å
Deposited: 2022-07-01
Authors: Zhang, X., Li, S., Pintilie, G., Palo, M.Z., Zhang, K.
PDB entry 7ych: Cryo-EM structure of Tetrahymena ribozyme conformation 3 undergoing the first-step self-splicing
Classification: RNA
Source organism: Tetrahymena; SYNTHETIC CONSTRUCT
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.09 Å
Deposited: 2022-07-01
Authors: Zhang, X., Li, S., Pintilie, G., Palo, M.Z., Zhang, K.
PDB entry 7yci: Cryo-EM structure of Tetrahymena ribozyme conformation 4 undergoing the first-step self-splicing
Classification: RNA
Source organism: Tetrahymena; SYNTHETIC CONSTRUCT
Experimental method: ELECTRON MICROSCOPY
Resolution: 2.98 Å
Deposited: 2022-07-01
Authors: Zhang, X., Li, S., Pintilie, G., Palo, M.Z., Zhang, K.
PDB entry 7ycj: Crystal structure of Vac8 bound to Vac17
Classification: CELL CYCLE
Source organism: Saccharomyces cerevisiae
Experimental method: X-RAY DIFFRACTION
Resolution: 2.101 Å
Deposited: 2022-07-01
Authors: Kim, H., Kim, H., Lee, C.
PDB entry 7yck: Crystal structure of SARS-CoV-2 Spike RBD in complex with FP-12A Fab
Classification: VIRAL PROTEIN/IMMUNE SYSTEM
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus 2
Experimental method: X-RAY DIFFRACTION
Resolution: 2.6 Å
Deposited: 2022-07-01
Authors: Nguyen, V.H.T., Chen, X.
PDB entry 7ycl: Crystal structure of SARS-CoV-2 Spike RBD in complex with IS-9A Fab
Classification: VIRAL PROTEIN/IMMUNE SYSTEM
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus 2
Experimental method: X-RAY DIFFRACTION
Resolution: 2.13 Å
Deposited: 2022-07-01
Authors: Mohapatra, A., Chen, X.
PDB entry 7ycm: TR-SFX MmCPDII-DNA complex: 100 ps snapshot. Includes 100ps, dark, and extrapolated structure factors
Classification: DNA BINDING PROTEIN
Source organism: Methanosarcina mazei; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 2 Å
Deposited: 2022-07-01
Authors: Maestre-Reyna, M., Wang, P.-H., Nango, E., Hosokawa, Y., Saft, M., Furrer, A., Yang, C.-H., Ngura Putu, E.P.G., Wu, W.-J., Emmerich, H.-J., Engilberge, S., Caramello, N., Wranik, M., Glover, H.L., Franz-Badur, S., Wu, H.-Y., Lee, C.-C., Huang, W.-C., Huang, K.-F., Chang, Y.-K., Liao, J.-H., Weng, J.-H., Gad, W., Chang, C.-W., Pang, A.H., Gashi, D., Beale, E., Ozerov, D., Milne, C., Cirelli, C., Bacellar, C., Sugahara, M., Owada, S., Joti, Y., Yamashita, A., Tanaka, R., Tanaka, T., Luo, F.J., Tono, K., Kiontke, S., Spadaccini, R., Royant, A., Yamamoto, J., Iwata, S., Standfuss, J., Essen, L.-O., Bessho, Y., Tsai, M.-D.
PDB entry 7ycn: Crystal structure of SARS-CoV-2 Spike RBD in complex with IY-2A Fab
Classification: VIRAL PROTEIN/IMMUNE SYSTEM
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus 2
Experimental method: X-RAY DIFFRACTION
Resolution: 2.85 Å
Deposited: 2022-07-01
Authors: Mohapatra, A., Chen, X.
PDB entry 7yco: Crystal structure of SARS-CoV-2 Receptor Binding Domain bound to A6 repebody
Classification: PROTEIN BINDING
Source organism: Cyclostomatida; Severe acute respiratory syndrome coronavirus 2
Experimental method: X-RAY DIFFRACTION
Resolution: 1.96 Å
Deposited: 2022-07-01
Authors: Kim, U.J., Cho, H.S.
PDB entry 7ycp: TR-SFX MmCPDII-DNA complex: 250 ps snapshot. Includes 250 ps, dark, and extrapolated structure factors
Classification: DNA BINDING PROTEIN
Source organism: Methanosarcina mazei; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 2.08 Å
Deposited: 2022-07-01
Authors: Maestre-Reyna, M., Wang, P.-H., Nango, E., Hosokawa, Y., Saft, M., Furrer, A., Yang, C.-H., Ngura Putu, E.P.G., Wu, W.-J., Emmerich, H.-J., Engilberge, S., Caramello, N., Wranik, M., Glover, H.L., Franz-Badur, S., Wu, H.-Y., Lee, C.-C., Huang, W.-C., Huang, K.-F., Chang, Y.-K., Liao, J.-H., Weng, J.-H., Gad, W., Chang, C.-W., Pang, A.H., Gashi, D., Beale, E., Ozerov, D., Milne, C., Cirelli, C., Bacellar, C., Sugahara, M., Owada, S., Joti, Y., Yamashita, A., Tanaka, R., Tanaka, T., Luo, F.J., Tono, K., Kiontke, S., Spadaccini, R., Royant, A., Yamamoto, J., Iwata, S., Standfuss, J., Essen, L.-O., Bessho, Y., Tsai, M.-D.
PDB entry 7ycq: Crystal structure of human transthyretin variant A97S complexed with Diflunisal
Classification: TRANSPORT PROTEIN
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 1.99 Å
Deposited: 2022-07-01
Authors: Wang, Y.S., Huang, C.H., Tzeng, S.R.
PDB entry 7ycr: TR-SFX MmCPDII-DNA complex: 450 ps snapshot. Includes 450ps, dark, and extrapolated structure factors
Classification: DNA BINDING PROTEIN
Source organism: Methanosarcina mazei; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 2.15 Å
Deposited: 2022-07-01
Authors: Maestre-Reyna, M., Wang, P.-H., Nango, E., Hosokawa, Y., Saft, M., Furrer, A., Yang, C.-H., Ngura Putu, E.P.G., Wu, W.-J., Emmerich, H.-J., Engilberge, S., Caramello, N., Wranik, M., Glover, H.L., Franz-Badur, S., Wu, H.-Y., Lee, C.-C., Huang, W.-C., Huang, K.-F., Chang, Y.-K., Liao, J.-H., Weng, J.-H., Gad, W., Chang, C.-W., Pang, A.H., Gashi, D., Beale, E., Ozerov, D., Milne, C., Cirelli, C., Bacellar, C., Sugahara, M., Owada, S., Joti, Y., Yamashita, A., Tanaka, R., Tanaka, T., Luo, F.J., Tono, K., Kiontke, S., Spadaccini, R., Royant, A., Yamamoto, J., Iwata, S., Standfuss, J., Essen, L.-O., Bessho, Y., Tsai, M.-D.
PDB entry 7ycs: Heterotetramer of Antitoxin PrpA together with Toxin PrpT from Pseudoalteromonas rubra
Classification: TOXIN/ANTITOXIN
Source organism: Pseudoalteromonas rubra
Experimental method: X-RAY DIFFRACTION
Resolution: 1.79 Å
Deposited: 2022-07-01
Authors: Wang, C.C., Niu, L.W.
PDB entry 7yct: HYDROXYNITRILE LYASE FROM THE MILLIPEDE, Oxidus gracilis complexed with (R)-2-Chloromandelonitrile
Classification: LYASE
Source organism: Oxidus gracilis
Experimental method: X-RAY DIFFRACTION
Resolution: 2.01 Å
Deposited: 2022-07-01
Authors: Chaikaew, S., Watanabe, Y., Zheng, D., Motojima, F., Asano, Y.
PDB entry 7ycu: Heterotetramer of Antitoxin PrpA together with Toxin PrpT from Pseudoalteromonas rubra
Classification: TOXIN/ANTITOXIN
Source organism: Pseudoalteromonas rubra
Experimental method: X-RAY DIFFRACTION
Resolution: 1.79 Å
Deposited: 2022-07-01
Authors: Wang, C.C., Niu, C.Y., Niu, L.W.
PDB entry 7ycv: The Dimeric Format of Truncated PrpA (2-54)and RHH Domain of PrpA
Classification: ANTITOXIN
Source organism: Pseudoalteromonas rubra
Experimental method: X-RAY DIFFRACTION
Resolution: 2.61 Å
Deposited: 2022-07-01
Authors: Wang, C.C., Niu, C.Y., Niu, L.W.
PDB entry 7ycw: Crystal Form 1 of Truncated Antitoxin ParD (2-54,containg RHH domain) from Pseudoalteromonas rubra
Classification: ANTITOXIN
Source organism: Pseudoalteromonas rubra
Experimental method: X-RAY DIFFRACTION
Resolution: 2.2 Å
Deposited: 2022-07-01
Authors: Wang, C.C., Niu, C.Y., Niu, L.W.
PDB entry 7ycx: The structure of INTAC-PEC complex
Classification: TRANSCRIPTION
Source organism: Homo sapiens; Sus scrofa; SYNTHETIC CONSTRUCT
Experimental method: ELECTRON MICROSCOPY
Resolution: 4.18 Å
Deposited: 2022-07-02
Authors: Zheng, H., Jin, Q., Wang, X., Qi, Y., Liu, W., Ren, Y., Zhao, D., Chen, F.X., Cheng, J., Chen, X., Xu, Y.
PDB entry 7ycy: SARS-CoV-2 Omicron 1-RBD up Spike trimer complexed with three XG005 molecules
Classification: VIRAL PROTEIN
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.74 Å
Deposited: 2022-07-02
Authors: Zhan, W.Q., Zhang, X., Chen, Z.G., Sun, L.
PDB entry 7ycz: SARS-CoV-2 Omicron 2-RBD up Spike trimer complexed with three XG005 molecules
Classification: VIRAL PROTEIN
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.24 Å
Deposited: 2022-07-02
Authors: Zhan, W.Q., Zhang, X., Chen, Z.G., Sun, L.
PDB entry 7yd0: SARS-CoV-2 Omicron 1-RBD up spike trimer complexed with two XG005 Fab
Classification: VIRAL PROTEIN
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.58 Å
Deposited: 2022-07-02
Authors: Zhan, W.Q., Zhang, X., Chen, Z.G., Sun, L.
PDB entry 7yd1: Local refinement of SARS-CoV-2 Omicron S trimer complexed with XG005
Classification: VIRAL PROTEIN
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 2.99 Å
Deposited: 2022-07-02
Authors: Zhan, W.Q., Zhang, X., Chen, Z.G., Sun, L.
PDB entry 7yd2: SulE_P44R_S209A
Classification: HYDROLASE
Source organism: Hansschlegelia zhihuaiae
Experimental method: X-RAY DIFFRACTION
Resolution: 1.61 Å
Deposited: 2022-07-03
Authors: Liu, B., Ran, T., Wang, W., He, J.
PDB entry 7yd3: Single-chain variable fragment of app 3D1 antibody
Classification: ANTIMICROBIAL PROTEIN
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 2.16 Å
Deposited: 2022-07-03
Authors: Yan, L., Yang, G.
PDB entry 7yd4: Crystal structure of an N terminal truncated secreted protein, Rv0398c from Mycobacterium tuberculosis
Classification: IMMUNE SYSTEM
Source organism: Mycobacterium tuberculosis H37Rv
Experimental method: X-RAY DIFFRACTION
Resolution: 1.896 Å
Deposited: 2022-07-03
Authors: Saha, R., Mukherjee, S., Singh, B.K., Weiss, M.S., De, S., Das, A.K.
PDB entry 7yd6: TR-SFX MmCPDII-DNA complex: 650 ps snapshot. Includes 650ps, dark, and extrapolated structure factors
Classification: DNA BINDING PROTEIN
Source organism: Methanosarcina mazei; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 2.15 Å
Deposited: 2022-07-04
Authors: Maestre-Reyna, M., Wang, P.-H., Nango, E., Hosokawa, Y., Saft, M., Furrer, A., Yang, C.-H., Ngura Putu, E.P.G., Wu, W.-J., Emmerich, H.-J., Engilberge, S., Caramello, N., Wranik, M., Glover, H.L., Franz-Badur, S., Wu, H.-Y., Lee, C.-C., Huang, W.-C., Huang, K.-F., Chang, Y.-K., Liao, J.-H., Weng, J.-H., Gad, W., Chang, C.-W., Pang, A.H., Gashi, D., Beale, E., Ozerov, D., Milne, C., Cirelli, C., Bacellar, C., Sugahara, M., Owada, S., Joti, Y., Yamashita, A., Tanaka, R., Tanaka, T., Luo, F.J., Tono, K., Kiontke, S., Spadaccini, R., Royant, A., Yamamoto, J., Iwata, S., Standfuss, J., Essen, L.-O., Bessho, Y., Tsai, M.-D.
PDB entry 7yd7: TR-SFX MmCPDII-DNA complex: 1 ns snapshot. Includes 1 ns, dark, and extrapolated structure factors
Classification: DNA BINDING PROTEIN
Source organism: Methanosarcina mazei; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 2.25 Å
Deposited: 2022-07-04
Authors: Maestre-Reyna, M., Wang, P.-H., Nango, E., Hosokawa, Y., Saft, M., Furrer, A., Yang, C.-H., Ngura Putu, E.P.G., Wu, W.-J., Emmerich, H.-J., Engilberge, S., Caramello, N., Wranik, M., Glover, H.L., Franz-Badur, S., Wu, H.-Y., Lee, C.-C., Huang, W.-C., Huang, K.-F., Chang, Y.-K., Liao, J.-H., Weng, J.-H., Gad, W., Chang, C.-W., Pang, A.H., Gashi, D., Beale, E., Ozerov, D., Milne, C., Cirelli, C., Bacellar, C., Sugahara, M., Owada, S., Joti, Y., Yamashita, A., Tanaka, R., Tanaka, T., Luo, F.J., Tono, K., Kiontke, S., Spadaccini, R., Royant, A., Yamamoto, J., Iwata, S., Standfuss, J., Essen, L.-O., Bessho, Y., Tsai, M.-D.
PDB entry 7yd8: TR-SFX MmCPDII-DNA complex: 2 ns snapshot. Includes 2 ns, dark, and extrapolated structure factors
Classification: DNA BINDING PROTEIN
Source organism: Methanosarcina mazei; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 2.15 Å
Deposited: 2022-07-04
Authors: Maestre-Reyna, M., Wang, P.-H., Nango, E., Hosokawa, Y., Saft, M., Furrer, A., Yang, C.-H., Ngura Putu, E.P.G., Wu, W.-J., Emmerich, H.-J., Engilberge, S., Caramello, N., Wranik, M., Glover, H.L., Franz-Badur, S., Wu, H.-Y., Lee, C.-C., Huang, W.-C., Huang, K.-F., Chang, Y.-K., Liao, J.-H., Weng, J.-H., Gad, W., Chang, C.-W., Pang, A.H., Gashi, D., Beale, E., Ozerov, D., Milne, C., Cirelli, C., Bacellar, C., Sugahara, M., Owada, S., Joti, Y., Yamashita, A., Tanaka, R., Tanaka, T., Luo, F.J., Tono, K., Kiontke, S., Spadaccini, R., Royant, A., Yamamoto, J., Iwata, S., Standfuss, J., Essen, L.-O., Bessho, Y., Tsai, M.-D.
PDB entry 7yd9: Crystal structure of the P450 BM3 heme domain mutant F87G/T268V/A184V/A328V in complex with N-imidazolyl-hexanoyl-L-phenylalanine,methylbenzene and hydroxylamine
Classification: OXIDOREDUCTASE
Source organism: Priestia megaterium NBRC 15308 = ATCC 14581
Experimental method: X-RAY DIFFRACTION
Resolution: 1.748 Å
Deposited: 2022-07-04
Authors: Dong, S., Chen, J., Jiang, Y., Cong, Z., Feng, Y.
PDB entry 7yda: Crystal structure of the P450 BM3 heme domain mutant F87V/T268V/A184V in complex with N-imidazolyl-pentanoyl-L-phenylalanine and hydroxylamine
Classification: OXIDOREDUCTASE
Source organism: Priestia megaterium NBRC 15308 = ATCC 14581
Experimental method: X-RAY DIFFRACTION
Resolution: 1.557 Å
Deposited: 2022-07-04
Authors: Dong, S., Chen, J., Jiang, Y., Cong, Z., Feng, Y.
PDB entry 7ydb: Crystal structure of the P450 BM3 heme domain mutant F87V/T268I in complex with N-imidazolyl-pentanoyl-L-phenylalanine,ethylbenzene and hydroxylamine
Classification: OXIDOREDUCTASE
Source organism: Priestia megaterium NBRC 15308 = ATCC 14581
Experimental method: X-RAY DIFFRACTION
Resolution: 1.472 Å
Deposited: 2022-07-04
Authors: Dong, S., Chen, J., Jiang, Y., Cong, Z., Feng, Y.
PDB entry 7ydc: Crystal structure of the P450 BM3 heme domain mutant F87L/T268V/V78C in complex with N-imidazolyl-pentanoyl-L-phenylalanine and hydroxylamine
Classification: OXIDOREDUCTASE
Source organism: Priestia megaterium NBRC 15308 = ATCC 14581
Experimental method: X-RAY DIFFRACTION
Resolution: 1.609 Å
Deposited: 2022-07-04
Authors: Dong, S., Chen, J., Jiang, Y., Cong, Z., Feng, Y.
PDB entry 7ydd: Crystal structure of the P450 BM3 heme domain mutant F87A/T268P/V78I in complex with N-imidazolyl-pentanoyl-L-phenylalanine,propylbenzene and hydroxylamine
Classification: OXIDOREDUCTASE
Source organism: Priestia megaterium NBRC 15308 = ATCC 14581
Experimental method: X-RAY DIFFRACTION
Resolution: 1.663 Å
Deposited: 2022-07-04
Authors: Dong, S., Chen, J., Jiang, Y., Cong, Z., Feng, Y.
PDB entry 7yde: Crystal structure of the P450 BM3 heme domain mutant F87T/T268V/I263V in complex with N-imidazolyl-hexanoyl-L-phenylalanine and hydroxylamine
Classification: OXIDOREDUCTASE
Source organism: Priestia megaterium NBRC 15308 = ATCC 14581
Experimental method: X-RAY DIFFRACTION
Resolution: 1.789 Å
Deposited: 2022-07-04
Authors: Dong, S., Chen, J., Jiang, Y., Cong, Z., Feng, Y.
PDB entry 7ydf: Crystal structure of human SARS2 catalytic domain
Classification: LIGASE
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 2.8 Å
Deposited: 2022-07-04
Authors: Wu, S., Li, P., Zhou, X.L., Fang, P.
PDB entry 7ydg: Crystal structure of human SARS2 catalytic domain with a disease related mutation
Classification: LIGASE
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 3.2 Å
Deposited: 2022-07-04
Authors: Wu, S., Li, P., Zhou, X.L., Fang, P.
PDB entry 7ydh: Cryo EM structure of CD97/miniG13 complex
Classification: MEMBRANE PROTEIN
Source organism: Homo sapiens
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.1 Å
Deposited: 2022-07-04
Authors: He, Y., Wang, N.
PDB entry 7ydi: SARS-CoV-2 Spike (6P) in complex with 3 R1-32 Fabs and 3 ACE2, focused refinement of RBD region
Classification: VIRAL PROTEIN/IMMUNE SYSTEM
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.98 Å
Deposited: 2022-07-04
Authors: Liu, B., Gao, X., Li, Z., Chen, X., He, J., Chen, L., Xiong, X.
PDB entry 7ydj: Cryo EM structure of CD97/miniG12 complex
Classification: MEMBRANE PROTEIN
Source organism: Homo sapiens
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.03 Å
Deposited: 2022-07-04
Authors: He, Y., Wang, N.
PDB entry 7ydl: Crystal structure of the P450 BM3 heme domain mutant F87A/T268I/A184V/A82T in complex with N-imidazolyl-hexanoyl-L-phenylalanine
Classification: OXIDOREDUCTASE
Source organism: Priestia megaterium NBRC 15308 = ATCC 14581
Experimental method: X-RAY DIFFRACTION
Resolution: 1.58 Å
Deposited: 2022-07-04
Authors: Dong, S., Chen, J., Jiang, Y., Cong, Z., Feng, Y.
PDB entry 7ydm: Cryo-EM structure of CD97/Gq complex
Classification: MEMBRANE PROTEIN
Source organism: Homo sapiens; Lama glama
Experimental method: ELECTRON MICROSCOPY
Resolution: 2.89 Å
Deposited: 2022-07-04
Authors: He, Y., Wang, N.
PDB entry 7ydo: Crystal structure of Atg44
Classification: LIPID BINDING PROTEIN
Source organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843)
Experimental method: X-RAY DIFFRACTION
Resolution: 1.58 Å
Deposited: 2022-07-04
Authors: Maruyama, T., Noda, N.N.
PDB entry 7ydp: Cryo-EM structure of CD97/miniGs complex
Classification: MEMBRANE PROTEIN
Source organism: Homo sapiens; Lama glama
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.1 Å
Deposited: 2022-07-04
Authors: He, Y., Wang, N.
PDB entry 7ydq: Structure of PfNT1(Y190A)-GFP in complex with GSK4
Classification: MEMBRANE PROTEIN
Source organism: Aequorea victoria; Plasmodium falciparum 3D7
Experimental method: ELECTRON MICROSCOPY
Resolution: 4.04 Å
Deposited: 2022-07-04
Authors: Wang, C., Yu, L.Y., Li, J.L., Ren, R.B., Deng, D.
PDB entry 7yds: The structure of the bispecific antibody targeted PD-L1 and 4-1BB
Classification: IMMUNE SYSTEM
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 2.3 Å
Deposited: 2022-07-04
Authors: Gao, Y., Zhu, M., Liu, W.T., Cheng, L.S., Zhu, Z.L., Niu, L.W.
PDB entry 7ydt: Crystal structure of mouse MPND
Classification: DNA BINDING PROTEIN
Source organism: Mus musculus
Experimental method: X-RAY DIFFRACTION
Resolution: 2.055 Å
Deposited: 2022-07-04
Authors: Yang, M., Chen, Z.
PDB entry 7ydw: Crystal structure of the MPND-DNA complex
Classification: DNA BINDING PROTEIN
Source organism: Mus musculus; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 2.47 Å
Deposited: 2022-07-04
Authors: Yang, M., Chen, Z.
PDB entry 7ydx: Crystal structure of human RIPK1 kinase domain in complex with compound RI-962
Classification: TRANSFERASE
Source organism: Homo sapiens
Experimental method: X-RAY DIFFRACTION
Resolution: 2.642 Å
Deposited: 2022-07-04
Authors: Zhang, L., Wang, Y., Li, Y., Wu, C., Luo, X., Wang, T., Lei, J., Yang, S.
PDB entry 7ydy: SARS-CoV-2 Spike (6P) in complex with 1 R1-32 Fab
Classification: VIRAL PROTEIN/IMMUNE SYSTEM
Source organism: Homo sapiens; Severe acute respiratory syndrome coronavirus 2
Experimental method: ELECTRON MICROSCOPY
Resolution: 4.75 Å
Deposited: 2022-07-04
Authors: Liu, B., Gao, X., Li, Z., Chen, X., He, J., Chen, L., Xiong, X.
PDB entry 7ydz: TR-SFX MmCPDII-DNA complex: dark state as collected in SACLA
Classification: DNA BINDING PROTEIN
Source organism: Methanosarcina mazei; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 2.23 Å
Deposited: 2022-07-05
Authors: Maestre-Reyna, M., Wang, P.-H., Nango, E., Hosokawa, Y., Saft, M., Furrer, A., Yang, C.-H., Ngura Putu, E.P.G., Wu, W.-J., Emmerich, H.-J., Engilberge, S., Caramello, N., Wranik, M., Glover, H.L., Franz-Badur, S., Wu, H.-Y., Lee, C.-C., Huang, W.-C., Huang, K.-F., Chang, Y.-K., Liao, J.-H., Weng, J.-H., Gad, W., Chang, C.-W., Pang, A.H., Gashi, D., Beale, E., Ozerov, D., Milne, C., Cirelli, C., Bacellar, C., Sugahara, M., Owada, S., Joti, Y., Yamashita, A., Tanaka, R., Tanaka, T., Luo, F.J., Tono, K., Kiontke, S., Spadaccini, R., Royant, A., Yamamoto, J., Iwata, S., Standfuss, J., Essen, L.-O., Bessho, Y., Tsai, M.-D.
PDB entry 7ye0: DF-SFX MmCPDII-DNA complex: steady state oxidized complex
Classification: DNA BINDING PROTEIN
Source organism: Methanosarcina mazei; SYNTHETIC CONSTRUCT
Experimental method: X-RAY DIFFRACTION
Resolution: 2.75 Å
Deposited: 2022-07-05
Authors: Maestre-Reyna, M., Wang, P.-H., Nango, E., Hosokawa, Y., Saft, M., Furrer, A., Yang, C.-H., Ngura Putu, E.P.G., Wu, W.-J., Emmerich, H.-J., Engilberge, S., Caramello, N., Wranik, M., Glover, H.L., Franz-Badur, S., Wu, H.-Y., Lee, C.-C., Huang, W.-C., Huang, K.-F., Chang, Y.-K., Liao, J.-H., Weng, J.-H., Gad, W., Chang, C.-W., Pang, A.H., Gashi, D., Beale, E., Ozerov, D., Milne, C., Cirelli, C., Bacellar, C., Sugahara, M., Owada, S., Joti, Y., Yamashita, A., Tanaka, R., Tanaka, T., Luo, F.J., Tono, K., Kiontke, S., Spadaccini, R., Royant, A., Yamamoto, J., Iwata, S., Standfuss, J., Essen, L.-O., Bessho, Y., Tsai, M.-D.
PDB entry 7ye1: The cryo-EM structure of C. crescentus GcrA-TACup
Classification: TRANSCRIPTION
Source organism: Caulobacter vibrioides NA1000; SYNTHETIC CONSTRUCT
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.7 Å
Deposited: 2022-07-05
Authors: Wu, X.X., Zhang, Y.
PDB entry 7ye2: The cryo-EM structure of C. crescentus GcrA-TACdown
Classification: TRANSCRIPTION
Source organism: Caulobacter vibrioides NA1000; SYNTHETIC CONSTRUCT
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.8 Å
Deposited: 2022-07-05
Authors: Wu, X.X., Zhang, Y.
PDB entry 7ye3: Crystal structure of Lactobacillus rhamnosus 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase KduI complexed with MES
Classification: ISOMERASE
Source organism: Lacticaseibacillus rhamnosus
Experimental method: X-RAY DIFFRACTION
Resolution: 2.553 Å
Deposited: 2022-07-05
Authors: Yamamoto, Y., Oiki, S., Takase, R., Mikami, B., Hashimoto, W.