Back to structures

NC_030909.1__YP_009273751.1__BH775_gp69__00069

Bact-Vir

NC_030909.1__YP_009273751.1__BH775_gp69__00069

Identity

Accession:
NC_030909 ↗
Kingdom:
phage

Quality

87.6 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 4-64
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2zw2A00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.66 52.0 4.71e-01 88.5% 94.1%
3mfiA04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.61 47.0 3.91e-01 88.5% 54.6%
3pjyA00 2.60.120.1140 Mainly Beta › Sandwich › Jelly Rolls › Protein of unknown function DUF192 0.60 47.0 3.70e-01 85.2% 94.6%
2j3wC00 3.30.450.70 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.59 39.0 3.11e-01 73.8% 31.1%
2v3sA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.59 45.0 3.95e-01 85.2% 100.0%
1vwxS02 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.59 46.0 4.35e-01 88.5% 72.4%
3eipA00 3.10.50.20 Alpha Beta › Roll › Chitinase A; domain 3 › Cloacin immunity protein 0.58 47.0 4.22e-01 88.5% 91.7%
2pjyC00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.58 49.0 4.58e-01 98.4% 74.7%
3lqmA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 44.0 3.80e-01 91.8% 50.0%
1ca1A02 2.60.60.20 Mainly Beta › Sandwich › Lipoxygenase-1 › PLAT/LH2 domain 0.58 46.0 3.75e-01 90.2% 78.3%
3sonA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.57 49.0 3.80e-01 100.0% 80.1%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.57 44.0 3.33e-01 90.2% 50.3%
2i44B00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.57 47.0 3.08e-01 100.0% 83.9%
4avaA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.56 39.0 3.05e-01 90.2% 31.2%
2f1eA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.56 42.0 3.46e-01 82.0% 74.1%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.56 43.0 3.74e-01 90.2% 57.8%
6julA02 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.56 44.0 3.87e-01 88.5% 58.3%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.56 47.0 4.39e-01 95.1% 82.9%
6kryA01 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.56 41.0 3.35e-01 85.2% 74.6%
6z9cA01 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.56 42.0 3.39e-01 82.0% 71.3%
1jx4A04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.56 43.0 3.81e-01 88.5% 58.2%
1blwA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 45.0 3.87e-01 91.8% 56.9%
3r8qA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 42.0 3.78e-01 93.4% 56.5%
4bwcA01 2.10.70.60 Mainly Beta › Ribbon › Complement Module; domain 1 › Phospholipase B-like, domain 1 0.55 31.0 3.29e-01 88.5% 58.5%
2nmlA00 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.55 43.0 3.79e-01 91.8% 80.0%
1xvsA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.55 42.0 3.39e-01 83.6% 71.5%
5hdwA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.55 43.0 3.42e-01 88.5% 42.0%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.54 41.0 3.78e-01 90.2% 92.4%
4harA00 3.10.50.50 Alpha Beta › Roll › Chitinase A; domain 3 › Rubella virus capsid protein 0.54 42.0 3.61e-01 85.2% 94.9%
3bbaA00 3.90.70.50 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Streptopain (SpeB) 0.54 42.0 2.91e-01 90.2% 29.3%
4h3wA02 2.60.120.1260 Mainly Beta › Sandwich › Jelly Rolls › 0.54 42.0 3.25e-01 88.5% 65.1%
2qsdA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.54 42.0 4.16e-01 90.2% 82.1%
2pnqA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.54 43.0 2.79e-01 100.0% 84.8%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.54 42.0 3.78e-01 91.8% 92.6%
4p04A01 2.60.40.3100 Mainly Beta › Sandwich › Immunoglobulin-like › Arylsulphate sulphotransferase monomer, N-terminal domain 0.53 42.0 3.61e-01 90.2% 51.9%
5u3fB01 3.30.470.10 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › Aminotransferase class 4, branched-chain amino acid transferase, N-terminal domain 0.53 42.0 3.23e-01 86.9% 95.0%
1unnC00 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.53 42.0 3.62e-01 95.1% 53.2%
4zpxA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 45.0 3.12e-01 100.0% 55.4%
5dcaA08 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.53 40.0 3.37e-01 83.6% 85.5%
3v6oA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 41.0 3.71e-01 91.8% 60.9%
6cc0A01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.51 35.0 2.70e-01 73.8% 40.2%
4uhwA09 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.51 36.0 3.14e-01 85.2% 45.8%
2z5bA00 3.30.230.100 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.51 39.0 3.17e-01 85.2% 66.9%
4wiwA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.51 38.0 3.75e-01 83.6% 98.6%
6kwzA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.51 42.0 3.75e-01 100.0% 64.3%
4dzdA02 3.30.70.1210 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Crispr-associated protein; domain 2 0.51 37.0 3.16e-01 86.9% 96.7%
2hj1A00 3.10.20.280 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RnfH-like 0.50 38.0 3.62e-01 88.5% 72.7%
ECOD (71)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5015713 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.69 53.0 5.42e-01 88.5% 98.3%
4040389 304.100.1.1 a+b two layers › Alpha-beta plaits › PurS-like › PurS-like › PurS 0.69 54.0 4.92e-01 88.5% 97.6%
4979507 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.68 57.0 4.24e-01 91.8% 38.3%
5033281 304.100.1.1 a+b two layers › Alpha-beta plaits › PurS-like › PurS-like › PurS 0.68 54.0 5.33e-01 88.5% 96.9%
3969006 3115.6.1.2 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.67 46.0 5.04e-01 88.5% 97.8%
3540023 382.1.1.1 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › UPAR_LY6 0.67 56.0 5.01e-01 96.7% 72.2%
3702557 3945.1.1.0 alpha superhelices › N-terminal fragment of dynein heavy chain › N-terminal fragment of dynein heavy chain › N-terminal fragment of dynein heavy chain 0.66 47.0 3.68e-01 88.5% 35.4%
4007508 3115.6.1.2 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.65 44.0 4.73e-01 90.2% 88.0%
3287357 3115.3.1.0 a+b two layers › GP2-like › P56 › P56 0.64 50.0 5.13e-01 88.5% 93.2%
3976579 11.1.1.227 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arylsulfotran_N 0.64 48.0 4.09e-01 91.8% 50.0%
4945577 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.64 50.0 5.00e-01 90.2% 89.2%
5049794 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.62 52.0 4.02e-01 96.7% 41.4%
4013678 226.1.1.0 a+b two layers › POZ domain › POZ domain › POZ domain 0.62 48.0 3.91e-01 86.9% 49.6%
3573883 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 0.62 47.0 3.90e-01 88.5% 48.8%
4942818 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.61 48.0 3.77e-01 90.2% 46.4%
1442393 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.61 47.0 3.99e-01 88.5% 53.2%
3501768 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.60 49.0 4.76e-01 93.4% 84.3%
3216210 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.60 43.0 4.63e-01 88.5% 96.0%
5081134 3986.2.1.0 a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.60 44.0 4.45e-01 86.9% 80.0%
4967222 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.60 48.0 4.83e-01 88.5% 95.0%
3276865 2492.1.1.0 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.60 44.0 3.79e-01 88.5% 49.0%
5012895 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.59 46.0 4.82e-01 88.5% 96.4%
4292753 264.2.1.0 beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.59 46.0 4.07e-01 88.5% 100.0%
4969863 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.59 46.0 4.34e-01 88.5% 70.7%
4013514 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.59 46.0 3.94e-01 88.5% 52.4%
4160542 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.59 46.0 4.74e-01 88.5% 98.3%
3285401 3986.2.1.0 a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.59 43.0 4.15e-01 90.2% 68.0%
4937773 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.58 46.0 4.71e-01 88.5% 94.8%
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 0.58 45.0 3.83e-01 88.5% 51.8%
4939155 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 0.58 45.0 3.73e-01 88.5% 47.9%
5000510 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.58 49.0 4.61e-01 95.1% 82.7%
5068178 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 0.58 46.0 4.07e-01 90.2% 67.4%
4951473 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.58 47.0 4.66e-01 90.2% 90.5%
3593981 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 0.58 45.0 3.90e-01 90.2% 56.2%
4990637 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.58 50.0 4.58e-01 100.0% 81.9%
3994984 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.58 46.0 4.52e-01 88.5% 92.3%
5030993 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.57 48.0 4.45e-01 95.1% 78.8%
4944477 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.57 43.0 3.16e-01 85.2% 53.5%
5065436 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.57 44.0 4.39e-01 88.5% 84.4%
3705532 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 44.0 3.58e-01 88.5% 46.9%
4996552 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.57 47.0 4.30e-01 95.1% 74.1%
4927303 525.1.1.1 a+b two layers › Urease, gamma-subunit › Urease, gamma-subunit › Urease, gamma-subunit › Urease_gamma 0.57 44.0 3.63e-01 86.9% 85.0%
3576143 221.1.1.113 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_3 0.57 45.0 3.75e-01 88.5% 68.2%
4939739 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.57 44.0 4.53e-01 88.5% 93.2%
2106285 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.56 45.0 3.90e-01 95.1% 56.5%
3941016 221.1.1.0 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.56 48.0 3.80e-01 100.0% 71.1%
4996589 3662.1.1.4 a+b two layers › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › PAC_bac 0.56 38.0 3.18e-01 72.1% 47.5%
3699048 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 43.0 3.64e-01 88.5% 53.0%
5067865 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.56 47.0 4.51e-01 95.1% 90.0%
5074648 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.56 46.0 4.39e-01 95.1% 84.0%
5047498 3662.1.1.4 a+b two layers › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › PAC_bac 0.55 38.0 3.19e-01 72.1% 46.1%
3395814 382.1.1.6 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › QVR 0.55 47.0 3.97e-01 98.4% 59.0%
4434140 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 0.55 42.0 3.53e-01 88.5% 50.8%
4977520 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 0.55 42.0 3.61e-01 90.2% 53.6%
5049412 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 0.55 42.0 3.49e-01 90.2% 48.8%
3611020 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.54 39.0 2.85e-01 80.3% 77.1%
3484366 284.1.2.1 a+b two layers › FKBP-like › FKBP-like › Conserved carboxy-terminal domain of oxidative-stress-responsive kinase 1-like kinases › OSR1_C 0.54 43.0 3.80e-01 93.4% 99.0%
3699329 70.3.1.1 beta barrels › beta-clip › SET domain-like › SET domain-like › SET 0.54 43.0 2.68e-01 98.4% 15.2%
3625017 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.54 45.0 3.80e-01 95.1% 78.2%
3453549 221.1.1.0 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.54 39.0 3.30e-01 88.5% 42.6%
4204424 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 0.54 41.0 3.61e-01 90.2% 56.2%
3923043 4326.1.1.1 a+b two layers › ERH-like › ERH-like › ERH-like › ER 0.54 43.0 3.73e-01 91.8% 81.0%
3734616 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 42.0 3.40e-01 91.8% 63.7%
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 0.54 42.0 3.57e-01 90.2% 54.5%
4490981 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 0.54 42.0 3.64e-01 95.1% 51.8%
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 0.53 41.0 3.45e-01 88.5% 54.8%
2999708 223.1.1.7 a+b three layers › Profilin-like › sensor domains › sensor domains › Autoind_bind 0.53 38.0 2.76e-01 77.0% 93.2%
4029586 10.32.1.203 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Seipin 0.52 40.0 3.17e-01 90.2% 76.0%
3464654 10.12.1.0 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.52 42.0 3.41e-01 88.5% 47.0%
4410522 223.1.1.7 a+b three layers › Profilin-like › sensor domains › sensor domains › Autoind_bind 0.52 37.0 2.80e-01 77.0% 41.8%
4530509 223.1.1.7 a+b three layers › Profilin-like › sensor domains › sensor domains › Autoind_bind 0.52 35.0 2.67e-01 72.1% 44.8%