DOI: 10.5281/zenodo.15224508
title: Data - Structure Prediction of Alternate Frame Folding Systems with AlphaFold3

description: GFP loop10 AlphaFold3 structures predicted using the AlphaFold server (https://alphafoldserver.com/): GPF_loop10_AFserver_prediction.zip

Clashed and clash-free GFP loop10 PDB structures predicted using the AlphaFold3 server: GFP_loop10_AFserver_clashed_models.tgz and GFP_loop10_AFserver_clash-free_models.tgz

Calbindin  Cal-E65Q1 AlphaFold3 clashed models obtained by standard AlphaFold3 prediction: Cal-E65Q1_clashed_sAF3_200_seeds_5_samples.tgz

Calbindin  Cal-E65Q1 AlphaFold3 clash-free models obtained by standard AlphaFold3 prediction: Cal-E65Q1_clash-free_sAF3_200_seeds_5_samples.tgz

Calbindin  Cal-E65Q2 AlphaFold3 clashed models obtained by standard AlphaFold3 prediction: Cal-E65Q2_clashed_sAF3_200_seeds_5_samples.tgz

Calbindin  Cal-E65Q2 AlphaFold3 clash-free models obtained by standard AlphaFold3 prediction: Cal-E65Q2_clash-free_sAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by AlphaFold3 prediction with targeted column masking in the absence of His-tag (10 seeds, 100 samples per seed): GPF_clashed_his-tag-free_cmAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by AlphaFold3 prediction with targeted column masking in the absence of His-tagi (200 seeds, 5 samples per seed): GPF_clashed_his-tag-free_cmAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by standard AlphaFold3 prediction in the absence of His-tag (10 seeds, 100 samples per seed): GPF_clashed_his-tag-free_sAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by standard AlphaFold3 prediction in the absence of His-tag (200 seeds, 5 samples per seed): GPF_clashed_his-tag-free_sAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by AlphaFold3 prediction without templates in the absence of His-tag (10 seeds, 100 samples per seed): GPF_clashed_his-tag-free_tfAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by AlphaFold3 prediction without templates in the absence of His-tag (200 seeds, 5 samples per seed): GPF_clashed_his-tag-free_tfAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by AlphaFold3 prediction without templates and with targeted column masking in the absence of His-tag (10 seeds, 100 samples per seed): GPF_clashed_his-tag-free_tfcmAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by AlphaFold3 prediction without templates and with targeted column masking in the absence of His-tag (200 seeds, 5 samples per seed):  GPF_clashed_his-tag-free_tfcmAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by AlphaFold3 prediction with targeted column masking in the presence of His-tag (10 seeds, 100 samples per seed): GPF_clashed_his-tagged_cmAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by AlphaFold3 prediction with targeted column masking in the presence of His-tag (200 seeds, 5 samples per seed): GPF_clashed_his-tagged_cmAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by standard AlphaFold3 prediction in the presence of His-tag (10 seeds, 100 samples per seed): GPF_clashed_his-tagged_sAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by standard AlphaFold3 prediction in the presence of His-tag (200 seeds, 5 samples per seed): GPF_clashed_his-tagged_sAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by AlphaFold3 prediction without templates in the presence of His-tag (10 seeds, 100 samples per seed): GPF_clashed_his-tagged_tfAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by AlphaFold3 prediction without templates in the presence of His-tag (200 seeds, 5 samples per seed): GPF_clashed_his-tagged_tfAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by AlphaFold3 prediction without templates and with targeted column masking in the presence of His-tag (10 seeds, 100 samples per seed):  GPF_clashed_his-tagged_tfcmAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clashed models obtained by AlphaFold3 prediction without templates and with targeted column masking in the presence of His-tag (200 seeds, 5 samples per seed):  GPF_clashed_his-tagged_tfcmAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by AlphaFold3 prediction with targeted column masking in the absence of His-tag (10 seeds, 100 samples per seed):  GPF_clash_free_his-tag-free_cmAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by AlphaFold3 prediction with targeted column masking in the absence of His-tag (200 seeds, 5 samples per seed):  GPF_clash_free_his-tag-free_cmAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by standard AlphaFold3 prediction in the absence of His-tag (10 seeds, 100 samples per seed):  GPF_clash_free_his-tag-free_sAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by standard AlphaFold3 prediction in the absence of His-tag (200 seeds, 5 samples per seed):  GPF_clash_free_his-tag-free_sAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by AlphaFold3 prediction without templates in the absence of His-tag (10 seeds, 100 samples per seed): GPF_clash_free_his-tag-free_tfAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by AlphaFold3 prediction without templates in the absence of His-tag (200 seeds, 5 samples per seed): GPF_clash_free_his-tag-free_tfAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by AlphaFold3 prediction without templates and with targeted column masking in the absence of His-tag (10 seeds, 100 samples per seed):  GPF_clash_free_his-tag-free_tfcmAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by AlphaFold3 prediction without templates and with targeted column masking in the absence of His-tag (200 seeds, 5 samples per seed):  GPF_clash_free_his-tag-free_tfcmAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by AlphaFold3 prediction with targeted column masking in the presence of His-tag (10 seeds, 100 samples per seed):  GPF_clash_free_his-tagged_cmAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by AlphaFold3 prediction with targeted column masking in the presence of His-tag (200 seeds, 5 samples per seed):  GPF_clash_free_his-tagged_cmAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by standard AlphaFold3 prediction in the presence of His-tag (10 seeds, 100 samples per seed):  GPF_clash_free_his-tagged_sAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by standard AlphaFold3 prediction in the presence of His-tag (200 seeds, 5 samples per seed):  GPF_clash_free_his-tagged_sAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by AlphaFold3 prediction without templates in the presence of His-tag (10 seeds, 100 samples per seed): GPF_clash_free_his-tagged_tfAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by AlphaFold3 prediction without templates in the presence of His-tag (200 seeds, 5 samples per seed): GPF_clash_free_his-tagged_tfAF3_200_seeds_5_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by AlphaFold3 prediction without templates and with targeted column masking in the presence of His-tag (10 seeds, 100 samples per seed):  GPF_clash_free_his-tagged_tfcmAF3_10_seeds_100_samples.tgz

GFPs loop0, loop1, loop2, loop4, loop6, loop10 and loop14 AlphaFold3 clash-free models obtained by AlphaFold3 prediction without templates and with targeted column masking in the presence of His-tag (200 seeds, 5 samples per seed):  GPF_clash_free_his-tagged_tfcmAF3_200_seeds_5_samples.tgz

Reference structure for computing structural similarity of AlphaFold models to a crystallographic structure of pre-cyclized GFP clean_2awj.pdb