At2g10070.2/PDB

&&&&&&&&&&&&&&&&&&&& BEGIN /usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues &&&&&&&&&&&&&&&&&&&&
Successfully read 2 file paths from WYRM_file_paths.txt
generic_input /usr/local/www/html/proteins/workspace/
generic_output /usr/local/www/html/proteins/htdocs/results/
======================================================
Sequence file type = 3
Sequence type = 3
Got here 1
Got here 2
Got here 3
Sequence 1
Got here 3
Got here 4
Got here 3
Got here 4
Got here 3
Got here 4
Got here 3
Got here 4
Got here 3
Sequence 2
Got here 3
Got here 4
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Got here 3
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Got here 4
Read 2 amino_acid sequences from PIR Sequence file /usr/local/www/html/proteins/workspace/At2g10070-2-1wmrA.pir.txt
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Assigned types to 208 residues in Sequence 2-10070-208, 11 remain unknown
Assigned types to 78 residues in Sequence 1wmrA, 141 remain unknown
======================================================
Successfully read 576 entries for residue match scoring matrix /usr/local/www/html/proteins/workspace/BLOSUM62.dat
Read the residue match scoring matrix /usr/local/www/html/proteins/workspace/BLOSUM62.dat
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Translated sequence file At2g10070-2-1wmrA.pir.txt into sequence alignment.
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>1WMR.pdb Made from 8484 ATOM records in 1WMR.pdb
REFMAVTANNSQLLTWWHNTGEINTQTPVADGNVRQSGLYSVKVQTTPAS
SSLYYDSFVYLAIPGNGMSDQLQYTQGYNQTQAWTSFLYSHDATVKISRN
GSSANSNVVIRPTSLNFPVRYDNQSVYITVPYSPTGYRFSVEFDDDLISL
APSGARQPENALLIFASPFENSSTKPQPGSPNSIAPAPGRVLGLNTTSAS
TVVFNPGVYYFTGHDHMVLSSSVTWVYFAPGAYVKGAVEFLSTASEVKAS
GHGVLSGEQYVWYADPDEGYQKASGANNNGLRMWRGTLGNSSQTFVLNGV
TVSAPPFNSMDWSGNSLDLITCRVDDYKQVGAFYGQTDGLEMYPGTILQD
VFYHTDDDGLKMYYSNVTARNIVMWKESVAPVVEFGWTPRNTENVLFDNV
DVIHQAYANAGNNPGIFGAVNNYLYAPDGLSSNHSTGNSNMTVRNITWSN
FRAEGSSSALFRINPIQNLDNISIKNVSIESFEPLSINTTESWMPVWYDL
NNGKQITVTDFSIEGFTVGNTTITASNAASVGRIDGVDPAYAGSVHYIDR
EFMAVTANNSQLLTWWHNTGEINTQTPVADGNVRQSGLYSVKVQTTPASS
SLYYDSFVYLAIPGNGMSDQLQYTQGYNQTQAWTSFLYSHDATVKISRNG
SSANSNVVIRPTSLNFPVRYDNQSVYITVPYSPTGYRFSVEFDDDLISLA
PSGARQPENALLIFASPFENSSTKPQPGSPNSIAPAPGRVLGLNTTSAST
VVFNPGVYYFTGHDHMVLSSSVTWVYFAPGAYVKGAVEFLSTASEVKASG
HGVLSGEQYVWYADPDEGYQKASGANNNGLRMWRGTLGNSSQTFVLNGVT
VSAPPFNSMDWSGNSLDLITCRVDDYKQVGAFYGQTDGLEMYPGTILQDV
FYHTDDDGLKMYYSNVTARNIVMWKESVAPVVEFGWTPRNTENVLFDNVD
VIHQAYANAGNNPGIFGAVNNYLYAPDGLSSNHSTGNSNMTVRNITWSNF
RAEGSSSALFRINPIQNLDNISIKNVSIESFEPLSINTTESWMPVWYDLN
NGKQITVTDFSIEGFTVGNTTITASNAASVGRIDGVDPAYAGSVHYID
======================================================
Best alignment:
1WMR.pdb 17 WHNTGEINTQTPVADGNVRQSGLYSVKVQTTPASSSLYYDSFVYLAIPGN 66
 + N+ P+ V+ Q P+SS L Y + GN
2-10070-208 54 FQNSSNREVPVPLLSEEVQNEASNRPIPQQDPSSSPLQNSHASYPSSQGN 103
1WMR.pdb 67 GMSD 70
 +
2-10070-208 104 NFHE 107
======================================================
Highlighted IDENTICAL residue TRP 32 index1 17 path 65 %Seq 100.00
Highlighted IDENTICAL residue ASN 34 index1 19 path 67 %Seq 100.00
Highlighted IDENTICAL residue THR 35 index1 20 path 68 %Seq 100.00
Highlighted IDENTICAL residue GLY 36 index1 21 path 69 %Seq 100.00
Highlighted IDENTICAL residue GLN 41 index1 26 path 74 %Seq 100.00
Highlighted IDENTICAL residue ASP 46 index1 31 path 79 %Seq 100.00
Highlighted IDENTICAL residue SER 52 index1 37 path 85 %Seq 50.00
Highlighted IDENTICAL residue GLY 53 index1 38 path 86 %Seq 50.00
Highlighted IDENTICAL residue LEU 54 index1 39 path 87 %Seq 50.00
Highlighted IDENTICAL residue TYR 55 index1 40 path 88 %Seq 50.00
Highlighted IDENTICAL residue SER 56 index1 41 path 89 %Seq 50.00
Highlighted IDENTICAL residue VAL 57 index1 42 path 90 %Seq 50.00
Highlighted IDENTICAL residue LYS 58 index1 43 path 91 %Seq 50.00
Highlighted IDENTICAL residue VAL 59 index1 44 path 92 %Seq 50.00
Highlighted IDENTICAL residue GLN 60 index1 45 path 93 %Seq 50.00
Highlighted IDENTICAL residue THR 61 index1 46 path 94 %Seq 50.00
Highlighted IDENTICAL residue THR 62 index1 47 path 95 %Seq 50.00
Highlighted IDENTICAL residue PRO 63 index1 48 path 96 %Seq 50.00
Highlighted IDENTICAL residue ALA 64 index1 49 path 97 %Seq 50.00
Highlighted IDENTICAL residue SER 65 index1 50 path 98 %Seq 50.00
Highlighted IDENTICAL residue SER 66 index1 51 path 99 %Seq 50.00
Highlighted IDENTICAL residue SER 67 index1 52 path 100 %Seq 50.00
Highlighted IDENTICAL residue LEU 68 index1 53 path 101 %Seq 50.00
Highlighted IDENTICAL residue TYR 69 index1 54 path 102 %Seq 50.00
Highlighted IDENTICAL residue TYR 70 index1 55 path 103 %Seq 50.00
Highlighted IDENTICAL residue ASP 71 index1 56 path 104 %Seq 50.00
Highlighted IDENTICAL residue SER 72 index1 57 path 105 %Seq 50.00
Highlighted IDENTICAL residue PHE 73 index1 58 path 106 %Seq 50.00
Highlighted IDENTICAL residue VAL 74 index1 59 path 107 %Seq 50.00
Highlighted IDENTICAL residue TYR 75 index1 60 path 108 %Seq 50.00
Highlighted IDENTICAL residue LEU 76 index1 61 path 109 %Seq 50.00
Highlighted IDENTICAL residue ALA 77 index1 62 path 110 %Seq 50.00
Highlighted IDENTICAL residue ILE 78 index1 63 path 111 %Seq 50.00
Highlighted IDENTICAL residue PRO 79 index1 64 path 112 %Seq 50.00
Highlighted IDENTICAL residue GLY 80 index1 65 path 113 %Seq 50.00
Highlighted IDENTICAL residue ASN 81 index1 66 path 114 %Seq 50.00
Highlighted IDENTICAL residue GLY 82 index1 67 path 115 %Seq 50.00
Highlighted IDENTICAL residue MET 83 index1 68 path 116 %Seq 50.00
Highlighted IDENTICAL residue SER 84 index1 69 path 117 %Seq 50.00
Highlighted IDENTICAL residue ASP 85 index1 70 path 118 %Seq 50.00
Highlighted 40 residues for visualization
Wrote PyMOL macro into file /usr/local/www/html/proteins/htdocs/results/At2g10070-2-1wmrA.pir.txt.1WMR.pdb.conservation.pml
===============================================================================
The program
/usr/local/www/html/proteins/Compiled_Programs/WYRM/PyMOL_highlight_conserved_residues At2g10070-2-1wmrA.pir.txt PIR amino_acid 1WMR.pdb _ 100.0 BLOSUM62.dat 
completed successfully.
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