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NC_070794.1__YP_010653171.1__PP490_gp61__00061

Bact-Vir

NC_070794.1__YP_010653171.1__PP490_gp61__00061

Identity

Accession:
NC_070794 ↗
Kingdom:
phage

Quality

79.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Nymphadoravirus› Gordonia_phage_Maridalia

TaxID: 2488957

Cluster

View cluster (10 members)

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 36-108
PDB
Domain cluster: rep: KX557277.1__AOE44324.1__SEA_EYRE_44__00044__D37-104
D2 high residues 112-225
PDB
Domain cluster: rep: KP792622.1__AKA60285.1__P8625_34__00034__D69-162
D3 high residues 285-368
PDB
Domain cluster: representative
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4olsA00 3.40.80.10 Alpha Beta › 3-Layer(aba) Sandwich › Lysozyme-like › Peptidoglycan recognition protein-like 0.67 48.0 3.64e-01 73.8% 89.2%
3if8B02 1.20.58.730 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.63 49.0 4.67e-01 97.6% 72.0%
6vddD01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.62 48.0 3.77e-01 84.5% 74.7%
1nv8B01 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.60 45.0 4.81e-01 97.6% 94.4%
3x1oA00 1.20.120.1790 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.59 44.0 3.59e-01 77.4% 77.2%
2o70B00 1.10.3330.10 Mainly Alpha › Orthogonal Bundle › UraD-like › Oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline decarboxylase 0.57 42.0 3.37e-01 77.4% 64.0%
2q37A00 1.10.3330.10 Mainly Alpha › Orthogonal Bundle › UraD-like › Oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline decarboxylase 0.57 43.0 3.62e-01 81.0% 69.7%
1fafA00 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.56 37.0 3.84e-01 76.2% 72.2%
2c42A06 3.40.50.970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains 0.56 40.0 2.60e-01 75.0% 41.6%
2qdjA03 1.10.472.140 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › 0.56 41.0 3.67e-01 77.4% 90.5%
2b3tA01 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.55 44.0 4.44e-01 98.8% 86.9%
3au5A03 1.20.80.10 Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › 0.54 41.0 3.78e-01 83.3% 83.0%
2mqaA00 1.10.274.60 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Spidroin, repetitive domain 0.53 46.0 4.11e-01 100.0% 98.4%
1svmA01 1.10.10.510 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Zinc finger, large T-antigen D1 domain 0.53 40.0 3.97e-01 79.8% 80.0%
4citA00 1.10.606.20 Mainly Alpha › Orthogonal Bundle › Vanadium-containing Chloroperoxidase; domain 2 › 0.53 47.0 3.05e-01 100.0% 87.6%
1a41A02 1.20.120.380 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 0.53 38.0 3.73e-01 98.8% 69.1%
3c7jA02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.53 43.0 3.56e-01 86.9% 90.4%
1jr3C02 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.53 41.0 3.63e-01 83.3% 93.4%
4hstB03 1.10.1400.10 Mainly Alpha › Orthogonal Bundle › Penicillin amidase (Acylase) alpha subunit, N-terminal domain › Aminohydrolase, alpha-helical knob region 0.52 44.0 3.86e-01 96.4% 89.1%
2hsbA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.51 40.0 3.55e-01 84.5% 83.3%
3lmfA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.51 40.0 3.70e-01 84.5% 78.9%
1bgpA01 1.10.520.10 Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › 0.50 36.0 2.95e-01 76.2% 60.9%
2r6aC01 1.10.860.10 Mainly Alpha › Orthogonal Bundle › DNAb Helicase; Chain A › DNAb Helicase; Chain A 0.50 36.0 3.49e-01 97.6% 66.7%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4987893 3883.1.1.0 ↗ alpha bundles › CDP-alcohol phosphotransferase helical bundle domain › CDP-alcohol phosphotransferase helical bundle domain › CDP-alcohol phosphotransferase helical bundle domain 0.59 53.0 4.00e-01 100.0% 76.6%
4999047 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.58 49.0 3.74e-01 92.9% 76.5%
4584357 103.4.1.0 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein 0.58 44.0 4.47e-01 97.6% 84.3%
3760775 103.4.1.2 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › TFIIS_M 0.58 44.0 4.36e-01 97.6% 77.8%
3843701 129.1.1.27 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › Speriolin_C 0.57 37.0 3.02e-01 78.6% 34.8%
3530765 192.29.1.203 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › IQUB 0.57 40.0 3.67e-01 73.8% 73.9%
4234936 3646.1.1.1 ↗ alpha complex topology › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › CbiQ 0.57 44.0 3.31e-01 81.0% 39.5%
4937529 103.9.1.0 ↗ alpha arrays › RuvA-C › RanGAP2 N-terminal domain › RanGAP2 N-terminal domain 0.56 43.0 4.06e-01 98.8% 69.0%
3621947 196.1.1.1 ↗ alpha bundles › Regulator of G-protein signaling, RGS › Regulator of G-protein signaling, RGS › Regulator of G-protein signaling, RGS › RGS 0.56 41.0 3.85e-01 83.3% 64.0%
None — 0.56 43.0 2.91e-01 83.3% 63.9%
3688792 5050.1.1.1 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Sugar_tr 0.54 45.0 3.27e-01 92.9% 68.2%
2485687 4953.2.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › Lid-like insertion of Propionyl-CoA synthase (PCS) ligase domain › Lid-like insertion of Propionyl-CoA synthase (PCS) ligase domain 0.53 37.0 3.70e-01 82.1% 70.6%
3849025 601.1.1.145 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › IQUB 0.53 39.0 3.52e-01 77.4% 70.4%
5073599 4156.1.1.1 ↗ alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 0.52 38.0 3.33e-01 77.4% 81.5%
4927525 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.52 40.0 2.92e-01 95.2% 29.4%
3189358 3985.1.1.0 ↗ alpha bundles › CFEM domain (contains eight cysteines) › CFEM domain (contains eight cysteines) › CFEM domain (contains eight cysteines) 0.52 32.0 3.26e-01 81.0% 61.2%
3283013 3576.1.1.1 ↗ a+b complex topology › Cas8-like › Cascade subunit CasA/Cse1/Cas8 › Cascade subunit CasA/Cse1/Cas8 › CRISPR_Cse1 0.51 43.0 2.72e-01 98.8% 41.1%
3784652 168.1.1.1 ↗ alpha arrays › Sec7 domain › Sec7 domain › Sec7 domain › Sec7 0.51 36.0 2.87e-01 73.8% 88.0%
3949212 2498.1.1.75 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › MPTase-PolyVal 0.51 40.0 3.12e-01 86.9% 38.2%
3957983 2002.1.1.4 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Alpha-amylase 0.51 39.0 2.28e-01 81.0% 25.9%