←Back to structures

NC_015251.1__YP_004301124.1__ST65p287__00286

Bact-Vir

NC_015251.1__YP_004301124.1__ST65p287__00286

Identity

Accession:
NC_015251 ↗
Kingdom:
phage

Quality

87.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Ishigurovirus› Aeromonas_phage_65

TaxID: 2919549

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 15-105
PDB
Domain cluster: representative
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4hcsA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.74 31.0 3.61e-01 100.0% 53.7%
4p5nA00 2.30.30.1060 Mainly Beta › Roll › SH3 type barrels. › 0.69 34.0 3.73e-01 100.0% 56.8%
3kmhA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.58 31.0 2.35e-01 90.1% 20.6%
3d2lA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.58 26.0 3.07e-01 95.6% 60.3%
4bt2A01 3.30.1330.80 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Hypothetical protein, similar to alpha- acetolactate decarboxylase; domain 2 0.55 33.0 3.08e-01 81.3% 47.4%
4f03A01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.52 39.0 3.77e-01 80.2% 93.3%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3810129 376.1.2.2 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › Cysteine-rich domain › C1_2 0.55 33.0 3.79e-01 76.9% 84.6%
4190913 325.1.7.3 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › Apocytochr_F_C 0.52 36.0 3.72e-01 72.5% 83.5%
D2 high residues 121-188
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3kihC01 2.20.25.510 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.73 30.0 4.07e-01 98.5% 73.5%
2proC01 3.30.300.50 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.70 44.0 4.48e-01 83.8% 65.7%
1lqlA01 2.20.25.10 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.69 26.0 3.79e-01 89.7% 80.8%
3c4bA02 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.61 42.0 4.26e-01 73.5% 97.0%
2jrbA00 3.30.250.20 Alpha Beta › 2-Layer Sandwich › Rec A Protein; domain 2 › L1 transposable element, C-terminal domain 0.57 40.0 4.11e-01 77.9% 78.5%
3i9v700 3.30.920.80 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › NADH-quinone oxidoreductase, subunit 15 0.56 40.0 3.39e-01 77.9% 88.2%
2qvwD02 2.170.260.10 Mainly Beta › Beta Complex › paz domain › paz domain 0.56 39.0 3.45e-01 75.0% 99.1%
6fopA01 2.70.98.30 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Golgi alpha-mannosidase II; domain 4 0.53 40.0 2.92e-01 86.8% 80.5%
1wzvA00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.53 41.0 3.25e-01 86.8% 76.7%
6bu2A00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.52 41.0 3.32e-01 91.2% 79.3%
1njhA00 2.70.180.10 Mainly Beta › Distorted Sandwich › Protein Yojf; Chain: A; › Hypothetical protein YojF 0.51 43.0 3.77e-01 97.1% 98.1%
2oolA01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.51 35.0 3.11e-01 86.8% 46.7%
4hc5D00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.50 41.0 3.47e-01 97.1% 84.7%
1b77A00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.50 41.0 2.90e-01 92.6% 38.2%
4qnyA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 40.0 3.47e-01 94.1% 93.3%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3742793 601.23.1.4 ↗ alpha bundles › Four-helical up-and-down bundle › DNA repair protein MutS, domain III › DNA repair protein MutS, domain III › MutS_IV, MutS_III 0.60 38.0 2.53e-01 85.3% 14.4%
4024124 148.1.3.40 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › ORC5_lid 0.58 47.0 3.76e-01 94.1% 66.0%
3596616 3794.1.1.0 ↗ a+b two layers › Methylcrotonyl-CoA carboxylase alpha-subunit BT domain-related › Methylcrotonyl-CoA carboxylase alpha-subunit BT domain-related › Barrel domain in methylcrotonyl-CoA carboxylase alpha-subunit 0.57 43.0 3.54e-01 83.8% 98.5%
5042514 246.2.1.9 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos_2 0.57 47.0 3.51e-01 95.6% 91.1%
3606615 241.10.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › GAS2 domain › GAS2 domain 0.56 40.0 3.79e-01 79.4% 94.4%
4216985 331.19.1.2 ↗ a+b two layers › TBP-like › Toxin RnlA N-terminal domains › Toxin RnlA N-terminal domains › RnlA_toxin_N 0.55 44.0 4.13e-01 88.2% 84.7%
3971271 3518.1.1.1 ↗ a+b two layers › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex › FMN_bind 0.55 45.0 3.53e-01 92.6% 76.8%
3900771 330.9.1.0 ↗ a+b two layers › dsRBD-like › C-terminal domain in LINE-1 ORF1p › C-terminal domain in LINE-1 ORF1p 0.54 38.0 3.95e-01 79.4% 85.0%
3945345 2487.1.1.8 ↗ a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" › RraA-like 0.54 41.0 3.57e-01 83.8% 100.0%
4233484 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.53 37.0 3.51e-01 88.2% 62.5%
3967213 283.1.1.1 ↗ a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › Creatinase/aminopeptidase › Creatinase/aminopeptidase › Peptidase_M24 0.51 43.0 2.96e-01 98.5% 93.8%
3593849 316.1.1.0 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.51 41.0 3.04e-01 88.2% 65.0%
4596504 331.10.2.1 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase › AdoMet_dc 0.51 42.0 3.23e-01 100.0% 87.9%
3706976 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.51 41.0 2.84e-01 95.6% 90.9%
3679716 316.1.1.36 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › MTPAP-like_central 0.51 44.0 3.26e-01 97.1% 66.1%
3594326 241.10.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › GAS2 domain › GAS2 domain 0.51 36.0 3.55e-01 80.9% 93.8%
3964441 9.11.1.1 ↗ beta barrels › Lipocalins/Streptavidin › YdhA-like › YdhA-like › MliC 0.50 42.0 4.01e-01 95.6% 88.7%
4471256 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.50 41.0 2.95e-01 94.1% 81.8%
5980 227.1.1.9 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_PPF 0.50 41.0 3.56e-01 92.6% 79.1%