←Back to structures

PH2015_20_scaffold_1_prodigal-single.1__X__X__00261

Bact-Vir

PH2015_20_scaffold_1_prodigal-single.1__X__X__00261

Identity

Kingdom:
phage

Quality

91.2 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 17-63
PDB
Domain cluster: representative
CATH (56)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3wvoC02 1.10.132.100 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.75 63.0 4.67e-01 100.0% 36.9%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.71 47.0 3.80e-01 100.0% 36.4%
2pusA04 6.10.140.300 Special › Helix non-globular › Helix Hairpins › 0.70 54.0 4.21e-01 100.0% 38.0%
4dlqA02 1.25.40.610 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.69 55.0 4.45e-01 100.0% 45.3%
3ermB00 1.10.10.710 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › PSPTO_1197 like 0.67 52.0 4.73e-01 85.1% 68.8%
3rlbA00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.67 56.0 3.88e-01 100.0% 36.9%
4tkrA00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.66 54.0 3.73e-01 100.0% 35.5%
2qf9A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.65 56.0 3.94e-01 100.0% 71.8%
7q37A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.65 54.0 3.61e-01 100.0% 22.9%
2mpnA00 6.10.140.1340 Special › Helix non-globular › Helix Hairpins › 0.65 52.0 4.80e-01 100.0% 76.5%
3kavA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.64 52.0 4.21e-01 97.9% 91.2%
3gzfD00 1.10.150.420 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Coronavirus nonstructural protein 4 C-terminus 0.64 46.0 3.79e-01 91.5% 40.7%
1a41A02 1.20.120.380 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 0.64 53.0 4.35e-01 95.7% 48.9%
3pe0A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 53.0 4.22e-01 100.0% 47.2%
1vfiA00 1.10.246.100 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › Vanadium-binding protein 2 0.63 50.0 4.05e-01 100.0% 45.3%
2fiwA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.62 52.0 3.65e-01 97.9% 30.0%
3g67A00 1.10.287.950 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Methyl-accepting chemotaxis protein 0.62 53.0 3.49e-01 100.0% 22.1%
1exzB00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.61 53.0 3.80e-01 100.0% 34.3%
8b9zK01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 50.0 4.20e-01 100.0% 52.7%
3qmlD00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.61 43.0 2.74e-01 100.0% 13.6%
2y39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.61 50.0 3.94e-01 100.0% 45.5%
1ldjA02 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.60 49.0 3.79e-01 100.0% 47.2%
1xfiA02 1.20.1700.10 Mainly Alpha › Up-down Bundle › AF1104-like › AF1104-like 0.60 50.0 4.15e-01 97.9% 51.1%
2pvqA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.60 52.0 4.06e-01 100.0% 45.3%
1gw5A00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.60 44.0 2.50e-01 95.7% 6.5%
6axgA01 1.20.870.10 Mainly Alpha › Up-down Bundle › Son of sevenless (SoS) protein; Chain S, domain 1 › Son of sevenless (SoS) protein Chain: S domain 1 0.59 40.0 3.46e-01 100.0% 39.3%
3fseB02 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.59 52.0 3.66e-01 97.9% 42.4%
4gouA03 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.59 47.0 3.21e-01 100.0% 22.8%
8b6jF01 1.10.287.20 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Ubiquinol-cytochrome C reductase hinge domain 0.59 49.0 4.49e-01 100.0% 91.0%
1r2jA03 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 49.0 3.57e-01 100.0% 32.6%
2o36A01 1.20.1050.40 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › Endopeptidase. Chain P; domain 1 0.58 46.0 3.54e-01 100.0% 35.9%
3wozB00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.58 40.0 2.65e-01 100.0% 15.7%
2wcjA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.58 49.0 3.56e-01 97.9% 91.5%
3u0cA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.58 50.0 3.56e-01 100.0% 58.3%
3hmfA00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.58 47.0 3.70e-01 100.0% 94.8%
3nyjA00 1.20.120.770 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Amyloid precursor protein, E2 domain 0.58 48.0 3.31e-01 100.0% 33.7%
5is8A02 2.70.160.11 Mainly Beta › Distorted Sandwich › Hnrnp arginine n-methyltransferase1 › Hnrnp arginine n-methyltransferase1 0.58 46.0 3.17e-01 97.9% 77.9%
2kjgA00 1.20.120.970 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.58 43.0 3.54e-01 95.7% 40.4%
1ci0B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.58 46.0 3.07e-01 93.6% 20.6%
7zxkC01 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.57 48.0 3.46e-01 100.0% 74.7%
4bkxA01 4.10.1240.50 Few Secondary Structures › Irregular › Hormone receptor fold › 0.57 41.0 3.31e-01 85.1% 38.1%
4i4cB00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.57 50.0 2.91e-01 100.0% 17.1%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.57 49.0 4.63e-01 100.0% 86.2%
4u7iA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.57 45.0 3.78e-01 97.9% 48.4%
2yevA02 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.57 46.0 4.11e-01 97.9% 62.2%
2efkA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.56 48.0 3.04e-01 100.0% 73.3%
4cvuA03 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.56 48.0 2.85e-01 100.0% 30.0%
4e6nA02 6.10.140.1010 Special › Helix non-globular › Helix Hairpins › 0.56 45.0 4.18e-01 100.0% 80.3%
1urfA00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.56 45.0 3.95e-01 100.0% 58.0%
1wpaA01 6.10.140.340 Special › Helix non-globular › Helix Hairpins › 0.54 47.0 3.74e-01 100.0% 47.5%
3nowA02 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.54 43.0 2.52e-01 95.7% 9.6%
7ep1B01 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.54 47.0 2.98e-01 100.0% 35.1%
2aaaA01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.53 43.0 2.57e-01 95.7% 11.8%
2v4jA01 6.10.140.1420 Special › Helix non-globular › Helix Hairpins › 0.53 42.0 3.95e-01 97.9% 85.7%
2kxpA01 3.30.1140.60 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › F-actin capping protein, alpha subunit 0.51 39.0 3.18e-01 93.6% 50.5%
4gf0A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.51 39.0 3.24e-01 100.0% 45.1%
ECOD (42)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4940638 5067.1.1.2 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › SecD_SecF 0.79 65.0 4.26e-01 100.0% 21.4%
4597944 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.68 57.0 3.47e-01 100.0% 15.0%
3588902 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.67 54.0 4.04e-01 100.0% 87.9%
4864755 5001.1.1.6 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Bac_rhodopsin 0.66 56.0 3.68e-01 100.0% 22.0%
5044994 181.1.1.1 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N 0.65 51.0 4.30e-01 95.7% 49.4%
3360612 284.1.1.1 ↗ a+b two layers › FKBP-like › FKBP-like › FKBP-like › FKBP_C 0.65 43.0 3.28e-01 100.0% 26.7%
4045132 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.63 51.0 3.97e-01 100.0% 40.0%
3984016 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.62 52.0 4.30e-01 100.0% 52.2%
5056427 3843.1.1.38 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › T4SS_pilin 0.62 50.0 3.99e-01 100.0% 43.6%
3961606 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.61 47.0 2.85e-01 85.1% 13.2%
4995582 5065.1.1.1 ↗ alpha bundles › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › ABC-3 0.61 49.0 3.17e-01 100.0% 54.9%
3712266 192.6.1.0 ↗ alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain 0.61 53.0 3.79e-01 97.9% 36.3%
4962781 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.60 48.0 4.25e-01 100.0% 58.7%
4669161 3812.1.1.16 ↗ alpha bundles › Type III secretion protein YscE › Type III secretion protein YscE › Type III secretion protein YscE › Med12 0.60 50.0 3.62e-01 97.9% 32.1%
3518379 3502.1.1.1 ↗ alpha bundles › uncharacterized conserved protein › uncharacterized conserved protein › uncharacterized conserved protein › YebG 0.60 46.0 4.42e-01 85.1% 74.5%
3953529 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.60 52.0 3.08e-01 100.0% 62.7%
4883924 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.60 51.0 4.34e-01 100.0% 57.5%
4597007 192.6.1.0 ↗ alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain 0.60 46.0 4.70e-01 97.9% 93.3%
3451778 376.1.1.8 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › U-box 0.59 49.0 3.63e-01 100.0% 34.1%
4023249 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.59 45.0 3.56e-01 95.7% 39.0%
2701721 628.1.1.1 ↗ alpha bundles › Fatty acid responsive transcription factor FadR, C-terminal domain › Fatty acid responsive transcription factor FadR, C-terminal domain › Fatty acid responsive transcription factor FadR, C-terminal domain › FCD 0.59 51.0 3.58e-01 95.7% 59.2%
3498224 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 0.59 50.0 3.47e-01 100.0% 51.5%
3174760 109.4.1.658 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Tti2 0.59 51.0 3.00e-01 100.0% 11.3%
4317199 603.5.1.1 ↗ alpha bundles › STAT-like › FlgN-like › FlgN-like › FlgN 0.58 49.0 3.69e-01 100.0% 37.6%
4544002 192.6.1.1 ↗ alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain › ATP-synt_DE 0.58 46.0 4.59e-01 100.0% 86.0%
3382761 109.4.1.213 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › FancD2 0.58 45.0 2.47e-01 91.5% 5.6%
4565383 192.6.1.0 ↗ alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain 0.58 45.0 4.47e-01 100.0% 86.0%
3385374 109.4.1.213 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › FancD2 0.58 45.0 2.88e-01 93.6% 17.1%
3618935 192.15.1.77 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › OST3_OST6 0.57 48.0 3.72e-01 100.0% 43.5%
3251379 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.57 47.0 4.05e-01 100.0% 57.6%
3983659 4970.1.1.0 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.57 49.0 4.38e-01 95.7% 72.3%
3473142 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.57 47.0 3.47e-01 100.0% 35.0%
3788560 109.4.1.22 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Adaptin_N 0.57 45.0 2.53e-01 100.0% 6.9%
3377269 192.18.1.0 ↗ alpha bundles › Long alpha-hairpin › MxiH-like › MxiH-like 0.56 43.0 2.65e-01 95.7% 11.7%
3852459 109.4.1.761 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Telomere_reg-2 0.55 46.0 2.79e-01 95.7% 25.8%
4932577 109.4.1.95 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_2 0.55 46.0 3.13e-01 93.6% 96.5%
4962995 109.1.1.6 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › GST_C_2 0.55 45.0 3.16e-01 95.7% 29.7%
3690136 611.3.1.0 ↗ alpha bundles › N-cbl like › Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 › Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 0.54 45.0 3.64e-01 95.7% 47.4%
None — 0.54 46.0 3.15e-01 97.9% 27.1%
3542548 109.4.1.70 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › CID 0.54 46.0 3.10e-01 100.0% 24.9%
3589701 632.24.1.3 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › GBS CAMP factor C-terminal domain › GBS CAMP factor C-terminal domain › ORF6C 0.54 43.0 3.75e-01 100.0% 68.2%
3498628 109.4.1.645 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › BLM10_mid 0.54 44.0 2.39e-01 95.7% 25.5%