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GWB1_scaffold_5_curated_closed_complete_prodigal-single.1__X__X__00211

Bact-Vir

GWB1_scaffold_5_curated_closed_complete_prodigal-single.1__X__X__00211

Identity

Kingdom:
phage

Quality

75.2 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 8-84
PDB
Domain cluster: representative
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1vwxS01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.66 51.0 5.35e-01 87.0% 91.5%
5jgfA02 2.30.250.10 Mainly Beta › Roll › Aminopeptidase i, Domain 2 › Aminopeptidase i, Domain 2 0.64 47.0 3.89e-01 80.5% 76.6%
1vwxS02 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.64 51.0 5.18e-01 96.1% 89.5%
2hfqA00 3.10.510.10 Alpha Beta › Roll › NE1680-like fold › NE1680-like 0.63 55.0 5.39e-01 100.0% 94.1%
3hh7A00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.62 36.0 3.82e-01 90.9% 66.2%
2hj1A00 3.10.20.280 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RnfH-like 0.60 41.0 4.17e-01 75.3% 72.7%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.59 44.0 3.94e-01 79.2% 60.6%
4nx9A02 2.60.40.4390 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 43.0 3.75e-01 77.9% 67.8%
3ir9A02 3.30.1330.30 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Ribosomal protein L30/S12 0.59 49.0 4.19e-01 89.6% 71.7%
1i7dA03 2.70.20.10 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Topoisomerase I, domain 3 0.58 45.0 3.81e-01 88.3% 99.3%
7emfR01 2.40.320.10 Mainly Beta › Beta Barrel › Hypothetical Protein Pfu-838710-001 › Hypothetical Protein Pfu-838710-001 0.56 48.0 3.63e-01 92.2% 69.7%
4bkwA03 3.30.500.40 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › 0.55 40.0 3.55e-01 80.5% 77.0%
2bs2B01 3.10.20.30 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Beta-grasp domain 0.55 40.0 3.67e-01 79.2% 82.1%
2h7aA01 3.10.510.20 Alpha Beta › Roll › NE1680-like fold › YcgL domain 0.55 46.0 4.72e-01 100.0% 97.4%
4h3wA02 2.60.120.1260 Mainly Beta › Sandwich › Jelly Rolls › 0.54 41.0 3.35e-01 83.1% 42.1%
5chtB00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.54 40.0 2.73e-01 81.8% 27.7%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.53 37.0 3.47e-01 79.2% 58.5%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.53 35.0 3.68e-01 81.8% 78.8%
3qtaB00 3.40.1550.10 Alpha Beta › 3-Layer(aba) Sandwich › Chemotaxis protein chec › CheC-like 0.53 45.0 3.46e-01 100.0% 63.3%
1jx4A04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.53 38.0 3.62e-01 79.2% 62.2%
2gpjA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.53 39.0 3.62e-01 79.2% 66.0%
3rbyA02 2.40.128.310 Mainly Beta › Beta Barrel › Lipocalin › Protein HRI1, C-terminal domain 0.52 38.0 3.59e-01 77.9% 98.9%
6y43A01 3.90.215.10 Alpha Beta › Alpha-Beta Complex › Gamma Fibrinogen; Chain A, domain 1 › Gamma Fibrinogen, chain A, domain 1 0.52 36.0 2.93e-01 85.7% 38.1%
1m1jE01 3.90.215.10 Alpha Beta › Alpha-Beta Complex › Gamma Fibrinogen; Chain A, domain 1 › Gamma Fibrinogen, chain A, domain 1 0.51 36.0 2.83e-01 81.8% 35.4%
1ohfA02 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.50 43.0 2.99e-01 100.0% 79.1%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5012895 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.70 48.0 5.54e-01 77.9% 100.0%
3588755 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.68 51.0 5.25e-01 80.5% 97.3%
5074648 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.67 54.0 5.45e-01 96.1% 89.3%
4967222 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.66 49.0 5.38e-01 81.8% 100.0%
3917143 304.100.1.0 a+b two layers › Alpha-beta plaits › PurS-like › PurS-like 0.66 48.0 5.29e-01 77.9% 98.3%
4939739 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.66 48.0 5.33e-01 80.5% 100.0%
4942818 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.66 51.0 4.18e-01 83.1% 56.4%
4969863 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.65 52.0 5.27e-01 96.1% 90.7%
5009745 302.4.1.1 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › Hydant_A_C 0.64 49.0 4.35e-01 83.1% 56.5%
5067865 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.64 52.0 5.38e-01 96.1% 97.1%
2723970 302.4.1.0 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.64 49.0 4.23e-01 83.1% 54.5%
5045852 302.4.1.1 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › Hydant_A_C 0.64 48.0 4.35e-01 83.1% 58.2%
5469 4943.1.1.2 a+b two layers › YcgL/NE1680-like › YcgL/NE1680-like › YcgL/NE1680-like › DUF2024 0.63 55.0 5.39e-01 100.0% 94.1%
4945976 302.4.1.1 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › Hydant_A_C 0.63 50.0 4.32e-01 87.0% 55.8%
4962205 302.4.1.0 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.62 47.0 4.21e-01 83.1% 56.5%
4330212 302.4.1.0 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.62 49.0 4.33e-01 87.0% 59.1%
3834402 5.1.4.550 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Kelch_FKB95 0.60 44.0 2.98e-01 79.2% 99.4%
2006886 302.4.1.1 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › Hydant_A_C 0.60 47.0 4.05e-01 87.0% 56.2%
5053865 821.1.1.0 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.59 52.0 4.95e-01 100.0% 84.4%
3393354 269.1.1.1 a+b complex topology › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen_C 0.58 46.0 3.36e-01 85.7% 57.7%
3905094 302.1.1.1 a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.57 43.0 3.66e-01 81.8% 53.3%
3896560 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.57 49.0 3.79e-01 93.5% 58.8%
3408464 269.1.1.1 a+b complex topology › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen_C 0.57 43.0 3.13e-01 81.8% 59.1%
3728853 3767.1.1.0 a+b two layers › Giardia Dicer N-terminal domain › Giardia Dicer N-terminal domain › Giardia Dicer N-terminal domain 0.57 50.0 3.99e-01 100.0% 60.6%
3415498 269.1.1.1 a+b complex topology › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen_C 0.57 46.0 3.19e-01 88.3% 53.1%
4946583 302.1.1.0 a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain 0.57 41.0 3.69e-01 79.2% 55.7%
3892827 269.1.1.1 a+b complex topology › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen_C 0.56 42.0 3.42e-01 80.5% 87.3%
4325944 3767.1.1.0 a+b two layers › Giardia Dicer N-terminal domain › Giardia Dicer N-terminal domain › Giardia Dicer N-terminal domain 0.56 50.0 4.21e-01 100.0% 72.3%
4659266 302.1.1.1 a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.56 41.0 3.73e-01 79.2% 56.4%
3990594 269.1.1.1 a+b complex topology › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen_C 0.56 44.0 3.24e-01 85.7% 58.6%
3744119 868.1.1.3 a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › Med20 0.56 45.0 3.45e-01 90.9% 89.1%
3886674 868.1.1.5 a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › Med18 0.55 46.0 3.39e-01 92.2% 58.7%
3514371 2492.1.1.0 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.55 40.0 2.94e-01 77.9% 27.9%
4190110 269.1.1.2 a+b complex topology › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen_C,Fib_alpha 0.54 42.0 2.83e-01 89.6% 41.9%
3399085 269.1.1.1 a+b complex topology › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen_C 0.54 40.0 2.82e-01 83.1% 44.8%
3457362 9.15.1.1 beta barrels › Lipocalins/Streptavidin › TLDC domain of oxidation resistance protein 2 › TLDC domain of oxidation resistance protein 2 › TLD 0.54 41.0 3.24e-01 84.4% 69.1%
3389696 269.1.1.1 a+b complex topology › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen_C 0.54 40.0 2.70e-01 80.5% 41.9%
3489525 219.1.1.3 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.54 41.0 2.93e-01 83.1% 32.9%
3848687 269.1.1.1 a+b complex topology › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen_C 0.53 42.0 2.79e-01 87.0% 38.5%
4069018 382.1.1.7 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › Toxin_cobra-type 0.53 36.0 4.05e-01 90.9% 93.2%
4563436 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.53 36.0 4.05e-01 90.9% 93.2%
1772519 269.1.1.1 a+b complex topology › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen_C 0.53 43.0 3.07e-01 92.2% 60.2%
3917738 269.1.1.1 a+b complex topology › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen_C 0.52 41.0 2.97e-01 88.3% 54.4%
4075642 382.1.1.7 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › Toxin_cobra-type 0.52 38.0 4.15e-01 84.4% 93.8%
3609926 302.1.1.0 a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain 0.52 39.0 3.36e-01 83.1% 63.1%
4963501 11.1.1.1049 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF7827 0.51 39.0 3.49e-01 83.1% 71.3%
D2 high residues 93-202
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2r9yA01 3.30.497.10 Alpha Beta › 2-Layer Sandwich › Antithrombin; Chain I, domain 2 › Antithrombin, subunit I, domain 2 0.65 49.0 3.89e-01 79.1% 63.0%
3juiA00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.64 52.0 4.44e-01 86.4% 62.6%
3solA00 1.20.58.1630 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Chaperone lipoprotein PulS/OutS 0.60 35.0 3.76e-01 96.4% 67.0%
2ppqA02 3.90.1200.10 Alpha Beta › Alpha-Beta Complex › Aminoglycoside 3'-phosphotransferase; Chain: A, domain 2 › Aminoglycoside phosphotransferase (APH), C-terminal lobe 0.59 45.0 3.72e-01 83.6% 96.3%
3aqtA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 44.0 3.72e-01 84.5% 72.8%
2pusA04 6.10.140.300 Special › Helix non-globular › Helix Hairpins › 0.55 38.0 3.86e-01 70.9% 79.6%
6qm7M00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.55 49.0 3.92e-01 98.2% 93.9%
2ibdA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 38.0 3.50e-01 71.8% 80.3%
5k7fA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 40.0 3.72e-01 77.3% 87.7%
6z3tA01 1.10.3370.10 Mainly Alpha › Orthogonal Bundle › Preprotein translocase SecY subunit › SecY subunit domain 0.54 44.0 3.09e-01 90.0% 97.9%
1yhlA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.53 38.0 2.65e-01 74.5% 45.3%
4rflA02 1.20.1090.10 Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain 0.52 37.0 3.13e-01 73.6% 78.9%
5b57B00 1.10.3470.10 Mainly Alpha › Orthogonal Bundle › ABC transporter involved in vitamin B12 uptake, BtuC › ABC transporter involved in vitamin B12 uptake, BtuC 0.52 41.0 3.00e-01 86.4% 67.1%
1nktA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 42.0 3.13e-01 89.1% 44.0%
4rg9B01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.51 36.0 3.21e-01 84.5% 48.5%
3hlzA02 1.20.120.1090 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.51 40.0 3.82e-01 85.5% 91.5%
1ac5A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.50 44.0 2.94e-01 99.1% 71.2%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4942128 604.39.1.0 alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters 0.59 43.0 3.91e-01 77.3% 94.8%
3297537 109.4.1.362 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_1,TPR_8 0.57 39.0 3.39e-01 74.5% 45.1%
4027404 3922.1.1.0 alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.54 30.0 3.30e-01 92.7% 64.2%
3903795 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 41.0 3.90e-01 81.8% 75.6%
3733091 109.58.1.1 alpha superhelices › Repetitive alpha hairpins › DNA repair protein Rev1 C-terminal domain › DNA repair protein Rev1 C-terminal domain › REV1_C 0.52 38.0 3.84e-01 76.4% 81.8%
4932401 3930.1.1.3 alpha bundles › Helical bundle insertion in helicase domains › Helical bundle in Hef helicase › Helical bundle in Hef helicase › RNA_helicase_helical 0.52 40.0 3.77e-01 89.1% 68.5%
5054778 3754.1.1.1 alpha bundles › Bacterial cell wall synthesis membrane enzyme MraY-related › Bacterial cell wall synthesis membrane enzyme MraY-related › Bacterial cell wall synthesis membrane enzyme MraY-related › Glycos_transf_4 0.51 43.0 3.14e-01 92.7% 98.5%
3483392 109.3.1.0 alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.51 41.0 3.57e-01 89.1% 59.4%