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NC_055728.1__YP_010092154.1__KNT72_gp003__00003

Bact-Vir

NC_055728.1__YP_010092154.1__KNT72_gp003__00003

Identity

Accession:
NC_055728 ↗
Kingdom:
phage

Quality

69.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Winklervirus› Serratia_phage_X20

TaxID: 2006942

Cluster

View cluster (3 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 2-91
PDB
Domain cluster: rep: OR567511.1__WOF01132.1__vBEnt31_000003__00003__D13-88
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF24075.2 best DUF7367 123.3 7.60e-36 98.9% 87.1%
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7xxiA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.72 51.0 3.52e-01 73.3% 67.2%
7s0rB01 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.68 47.0 5.09e-01 80.0% 84.2%
4kc9A02 1.20.120.1750 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.66 50.0 3.80e-01 82.2% 74.7%
1gcvA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.64 57.0 4.96e-01 98.9% 92.1%
4m0mA04 1.20.1270.440 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.64 52.0 4.79e-01 87.8% 100.0%
3ckdA02 1.20.58.360 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Shigella T3SS effector IpaH defines 0.63 43.0 3.86e-01 70.0% 62.9%
4xxiA00 1.10.490.20 Mainly Alpha › Orthogonal Bundle › Globin-like › Phycocyanins 0.63 57.0 4.80e-01 100.0% 74.1%
2e9fB01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.62 47.0 4.59e-01 80.0% 87.5%
3m7gA02 1.10.8.1010 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.61 46.0 4.62e-01 82.2% 87.4%
1orjD00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.61 46.0 4.15e-01 80.0% 65.6%
3m9vA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.59 51.0 4.36e-01 100.0% 82.2%
3t6gB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.59 44.0 3.91e-01 80.0% 78.4%
2ip6A00 1.20.1440.140 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.59 51.0 5.20e-01 96.7% 100.0%
3kavA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.58 50.0 4.88e-01 98.9% 99.0%
3bvxA02 1.20.1270.50 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Glycoside hydrolase family 38, central domain 0.57 43.0 4.10e-01 82.2% 74.8%
4m0mA03 1.20.1270.430 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.55 41.0 4.29e-01 80.0% 100.0%
3rguB00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.55 41.0 4.19e-01 82.2% 90.8%
3deeA01 1.10.150.690 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DUF2063 0.54 37.0 3.85e-01 100.0% 75.6%
2oxlA00 1.20.5.5260 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.54 34.0 3.95e-01 98.9% 93.5%
1zp2A02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.53 38.0 3.54e-01 75.6% 76.8%
3kwoA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.52 44.0 3.80e-01 95.6% 85.9%
1tjoB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.52 46.0 3.74e-01 100.0% 62.3%
4cybD00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.52 45.0 3.74e-01 100.0% 74.3%
2pv4A00 1.10.3440.10 Mainly Alpha › Orthogonal Bundle › Sama2622-like fold › Sama2622-like 0.51 39.0 3.33e-01 94.4% 50.3%
2c41C01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.51 45.0 3.84e-01 100.0% 71.1%
1h99A01 1.10.1790.10 Mainly Alpha › Orthogonal Bundle › PTS-regulatory domain, PRD › PRD domain 0.51 37.0 3.57e-01 77.8% 78.8%
2vxxA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.50 44.0 3.64e-01 100.0% 62.2%
2iw3A02 1.20.1390.20 Mainly Alpha › Up-down Bundle › PWI domain › 0.50 39.0 3.90e-01 84.4% 93.3%
2nxpB00 1.25.40.500 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › TFIID subunit TAF5, NTD2 domain 0.50 43.0 3.70e-01 95.6% 88.3%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5074726 633.10.1.0 ↗ alpha bundles › Bromodomain-like › IVS-encoded protein-like › IVS-encoded protein-like 0.72 59.0 6.04e-01 100.0% 95.3%
3252295 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.68 47.0 4.29e-01 72.2% 75.0%
3799465 601.1.2.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) 0.67 61.0 5.00e-01 100.0% 87.5%
4683095 632.7.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.64 46.0 4.89e-01 80.0% 86.3%
3880538 632.1.1.28 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › DUF2678 0.64 49.0 5.01e-01 81.1% 96.5%
4597667 135.1.1.1 ↗ alpha arrays › Transducin (alpha subunit), insertion domain › Transducin (alpha subunit), insertion domain › Transducin (alpha subunit), insertion domain › G-alpha 0.63 55.0 4.87e-01 100.0% 74.1%
3511563 192.29.1.143 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › CCDC28 0.62 47.0 4.50e-01 81.1% 92.4%
388243 206.1.1.10 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Choline_kinase 0.62 45.0 3.09e-01 78.9% 55.3%
5062170 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.61 54.0 4.89e-01 97.8% 76.7%
3701110 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.61 44.0 4.41e-01 80.0% 76.7%
4997872 633.10.1.0 ↗ alpha bundles › Bromodomain-like › IVS-encoded protein-like › IVS-encoded protein-like 0.60 53.0 4.99e-01 100.0% 99.1%
2979253 632.21.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Helical bundle domain in endo-beta-N-acetylglucosaminidase F2 › Helical bundle domain in endo-beta-N-acetylglucosaminidase F2 › EndoS_helical 0.60 44.0 4.88e-01 81.1% 98.6%
3804319 102.1.1.172 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › PF31137 0.59 46.0 4.53e-01 86.7% 97.0%
375971 633.21.1.1 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › DUF326 0.58 51.0 4.88e-01 100.0% 97.1%
3966246 633.21.1.0 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.58 51.0 5.01e-01 100.0% 98.0%
3576254 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 43.0 2.68e-01 81.1% 14.2%
3877844 529.1.1.2 ↗ few secondary structure elements › Anaphylotoxins (complement system) › Anaphylotoxins (complement system) › Anaphylotoxins (complement system) › BSMAP 0.57 42.0 4.28e-01 100.0% 78.9%
3257704 5001.1.1.265 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_2, PF29575 0.55 44.0 3.05e-01 88.9% 66.9%
185159 3552.1.1.1 ↗ alpha arrays › Pfam family PF09836 N-terminal domain › Pfam family PF09836 N-terminal domain › Pfam family PF09836 N-terminal domain › DUF2063 0.54 37.0 3.81e-01 100.0% 73.0%
4966460 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.54 38.0 3.71e-01 73.3% 67.0%
3542152 397.7.1.7 ↗ few secondary structure elements › Toxic hairpin › Ribosome-inactivating protein luffin P1 › Ribosome-inactivating protein luffin P1 › BSMAP 0.54 41.0 4.17e-01 82.2% 97.8%
4211419 103.2.1.2 ↗ alpha arrays › RuvA-C › ATP cone › ATP cone › ATP-cone 0.53 42.0 3.93e-01 87.8% 87.0%
4968904 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.53 46.0 3.22e-01 100.0% 37.8%
3506842 102.1.1.11 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › RNA_pol_Rpb4 0.52 32.0 3.02e-01 100.0% 45.8%
3177803 142.1.1.0 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.52 34.0 3.39e-01 90.0% 63.2%
4567823 6088.1.1.1 ↗ alpha arrays › Helical bundle domain in elongation factor 3A › Helical bundle domain in elongation factor 3A › Helical bundle domain in elongation factor 3A › 4HB 0.50 38.0 3.70e-01 82.2% 83.0%