←Back to structures

NC_074755.1__YP_010774322.1__QJS28_gp09__00009

Bact-Vir

NC_074755.1__YP_010774322.1__QJS28_gp09__00009

Identity

Accession:
NC_074755 ↗
Kingdom:
phage

Quality

72.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Bonzeevirus› Serratia_phage_vB_SmaS_Bigdog

TaxID: 2777364

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 25-127
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1vp7A00 1.10.287.1040 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Exonuclease VII, small subunit 0.88 52.0 6.40e-01 94.2% 91.2%
3k29A00 1.10.287.1700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.82 56.0 4.77e-01 70.9% 98.8%
4wpcA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.81 67.0 4.79e-01 87.4% 60.1%
4ciuA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.81 66.0 5.27e-01 86.4% 49.5%
2q12A00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.79 65.0 4.85e-01 87.4% 57.4%
2pmsC00 6.10.140.920 Special › Helix non-globular › Helix Hairpins › 0.77 59.0 5.79e-01 86.4% 74.3%
2ficB00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.76 61.0 4.91e-01 87.4% 66.7%
2iakA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.74 58.0 4.60e-01 81.6% 62.5%
5azpB01 1.20.1600.10 Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.69 52.0 3.53e-01 78.6% 77.5%
1avoB00 1.20.120.180 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Proteasome activator pa28, C-terminal domain 0.66 50.0 4.52e-01 86.4% 59.3%
5k3hB04 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.55 50.0 4.59e-01 98.1% 86.5%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5070059 3834.1.1.25 ↗ alpha bundles › TcA alpha pore-forming domain › TcA alpha pore-forming domain › TcA alpha pore-forming domain › DUF7121 0.94 65.0 4.67e-01 70.9% 83.2%
5020701 3755.3.1.637 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF7121 0.92 64.0 4.69e-01 70.9% 82.1%
5084060 3755.3.1.637 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF7121 0.88 61.0 5.18e-01 71.8% 47.1%
3195360 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.86 72.0 6.36e-01 87.4% 68.6%
3637653 3755.3.1.481 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › PF30554 0.85 59.0 5.00e-01 70.9% 84.5%
3892960 3291.1.1.86 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › PL48 0.83 68.0 6.08e-01 86.4% 77.1%
4984022 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.83 67.0 6.53e-01 86.4% 93.0%
3573035 109.4.1.3370 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PL48 0.83 67.0 6.12e-01 86.4% 80.7%
3200787 5086.1.1.211 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › PF30554 0.81 58.0 4.24e-01 73.8% 58.0%
3707099 5054.1.1.2 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans 0.81 67.0 4.37e-01 96.1% 22.2%
4985462 192.2.1.89 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › DUF7121 0.80 56.0 4.19e-01 71.8% 84.2%
4259224 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.79 54.0 4.67e-01 73.8% 47.1%
3356933 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 0.78 54.0 4.64e-01 70.9% 81.9%
3821694 109.46.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Helical domain in TOPLESS related protein 2 (TPR2) › Helical domain in TOPLESS related protein 2 (TPR2) › CTLH 0.78 63.0 4.36e-01 85.4% 35.6%
4570960 605.1.1.137 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › RRP36 0.77 55.0 4.73e-01 89.3% 48.1%
3348106 5076.2.1.10 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › PF29520 0.75 70.0 5.03e-01 100.0% 85.2%
3794996 192.12.1.0 ↗ alpha bundles › Long alpha-hairpin › Transcriptional repressor TraM › Transcriptional repressor TraM 0.74 60.0 5.24e-01 85.4% 82.7%
3596939 4010.1.1.0 ↗ a+b complex topology › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › N-terminal domain in beta subunit of DNA dependent RNA-polymerase 0.74 60.0 3.79e-01 86.4% 18.8%
3468645 4177.1.1.11 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › DUF632 0.74 60.0 4.47e-01 87.4% 67.1%
3301922 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.73 59.0 3.67e-01 87.4% 16.0%
3651038 192.29.1.221 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › PF29520 0.73 58.0 5.39e-01 90.3% 67.7%
5060018 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.71 61.0 5.73e-01 96.1% 76.0%
3215465 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.71 59.0 5.37e-01 86.4% 71.5%
4976711 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.70 57.0 4.93e-01 87.4% 63.7%
4272021 4006.1.1.1 ↗ alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.67 48.0 4.96e-01 91.3% 77.0%
4459302 3826.1.1.26 ↗ alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › RRP36 0.67 53.0 4.83e-01 89.3% 62.9%
4304767 4006.1.1.1 ↗ alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.66 48.0 4.92e-01 90.3% 78.0%
4634395 4006.1.1.1 ↗ alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.66 48.0 4.85e-01 88.3% 75.2%
3098420 4006.1.1.1 ↗ alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.66 49.0 4.85e-01 91.3% 73.4%
4097040 4006.1.1.1 ↗ alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.65 46.0 4.69e-01 90.3% 75.0%
3742731 7013.1.1.1 ↗ alpha bundles › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Efg1 0.65 59.0 5.10e-01 98.1% 79.4%
4429835 4006.1.1.1 ↗ alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.64 46.0 4.69e-01 90.3% 77.0%
4166693 7013.1.1.1 ↗ alpha bundles › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Efg1 0.64 59.0 4.79e-01 100.0% 71.9%
4453179 7013.1.1.1 ↗ alpha bundles › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Efg1 0.62 58.0 4.61e-01 100.0% 78.5%
4387547 7013.1.1.1 ↗ alpha bundles › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Efg1 0.61 57.0 4.59e-01 100.0% 66.3%
4978165 2484.1.1.124 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.54 51.0 3.98e-01 99.0% 85.0%
4977784 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.51 46.0 3.50e-01 99.0% 77.9%