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SR-VP_2-4_scaffold_141_2952615_prodigal-single.1__X__X__00209
Bact-VirSR-VP_2-4_scaffold_141_2952615_prodigal-single.1__X__X__00209
Identity
- Kingdom:
- phage
Quality
82.7
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 8-54
Domain cluster:
representative
CATH (34)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4evxA00 | 1.10.1740.240 | Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › | 0.93 | 76.0 | 5.78e-01 | 93.6% | 42.3% |
| 1fcqA00 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.88 | 75.0 | 4.47e-01 | 100.0% | 14.3% |
| 2g5gX02 | 1.10.8.760 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Haem-binding uptake, Tiki superfamily, ChaN, domain 2 | 0.83 | 64.0 | 5.90e-01 | 83.0% | 72.9% |
| 1nw9B00 | 3.40.50.1460 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.79 | 61.0 | 3.85e-01 | 85.1% | 29.8% |
| 3d36B02 | 1.10.287.130 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain | 0.78 | 54.0 | 4.91e-01 | 72.3% | 55.7% |
| 3hr0B01 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.78 | 55.0 | 4.57e-01 | 74.5% | 45.6% |
| 2itbB00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.76 | 63.0 | 4.04e-01 | 100.0% | 21.2% |
| 1nt2B02 | 1.10.287.660 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.75 | 53.0 | 4.71e-01 | 74.5% | 53.7% |
| 3s64A00 | 1.10.225.10 | Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like | 0.75 | 60.0 | 5.14e-01 | 93.6% | 55.6% |
| 6ofuA00 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.74 | 64.0 | 3.99e-01 | 97.9% | 89.2% |
| 4jvyB00 | 3.30.1370.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 | 0.72 | 50.0 | 3.26e-01 | 74.5% | 17.9% |
| 1ij5A01 | 1.20.58.90 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.72 | 55.0 | 4.65e-01 | 83.0% | 100.0% |
| 3fxdB00 | 1.20.58.90 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.72 | 53.0 | 4.95e-01 | 80.9% | 63.8% |
| 3djbA01 | 1.10.472.50 | Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like | 0.71 | 51.0 | 4.04e-01 | 76.6% | 40.6% |
| 4wr4A02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.71 | 44.0 | 3.36e-01 | 72.3% | 26.7% |
| 4r42A01 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.70 | 57.0 | 3.77e-01 | 89.4% | 59.4% |
| 2di0A01 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.69 | 47.0 | 4.79e-01 | 72.3% | 78.3% |
| 3ehfD01 | 1.20.5.1930 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.68 | 52.0 | 4.75e-01 | 83.0% | 68.3% |
| 6ynwH01 | 1.20.20.10 | Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C | 0.67 | 54.0 | 4.68e-01 | 89.4% | 59.5% |
| 1jwjA01 | 3.90.340.10 | Alpha Beta › Alpha-Beta Complex › Nitric Oxide Synthase; Chain A, domain 1 › Nitric Oxide Synthase; Chain A, domain 1 | 0.67 | 54.0 | 3.66e-01 | 87.2% | 24.3% |
| 6z01B03 | 1.10.132.10 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › | 0.66 | 50.0 | 3.48e-01 | 93.6% | 24.7% |
| 1kmiZ02 | 1.10.287.500 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.65 | 49.0 | 3.52e-01 | 83.0% | 88.8% |
| 1f45B00 | 1.20.1250.10 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › | 0.65 | 58.0 | 4.12e-01 | 100.0% | 52.6% |
| 3qxzA02 | 1.10.12.10 | Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › Lyase 2-enoyl-coa Hydratase, Chain A, domain 2 | 0.64 | 50.0 | 4.67e-01 | 87.2% | 68.3% |
| 5ux1D00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.63 | 55.0 | 3.61e-01 | 97.9% | 45.2% |
| 2r18A02 | 1.10.8.880 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Birnavirus VP3 protein, domain 2 | 0.63 | 44.0 | 4.20e-01 | 78.7% | 67.8% |
| 3h36A00 | 1.10.10.400 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain | 0.61 | 52.0 | 4.48e-01 | 100.0% | 60.3% |
| 2dzlA00 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.61 | 42.0 | 3.89e-01 | 80.9% | 54.5% |
| 2ejsA00 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.60 | 40.0 | 3.82e-01 | 80.9% | 55.2% |
| 2ekfA01 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.59 | 42.0 | 4.22e-01 | 76.6% | 78.3% |
| 5ywwA01 | 3.40.50.1010 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease | 0.59 | 44.0 | 3.28e-01 | 74.5% | 30.4% |
| 1op1A00 | 1.20.81.10 | Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain | 0.59 | 49.0 | 4.21e-01 | 97.9% | 56.1% |
| 2zxqA06 | 1.20.1270.70 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle | 0.59 | 50.0 | 4.50e-01 | 95.7% | 84.8% |
| 2yfqB01 | 1.10.8.1210 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › | 0.59 | 43.0 | 4.18e-01 | 80.9% | 71.2% |
ECOD (32)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4879388 | 162.1.1.0 ↗ | alpha bundles › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD | 0.84 | 72.0 | 5.77e-01 | 93.6% | 54.0% |
| 3608900 | 70.3.1.1 ↗ | beta barrels › beta-clip › SET domain-like › SET domain-like › SET | 0.80 | 62.0 | 3.67e-01 | 91.5% | 12.4% |
| 4129936 | 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 | 0.79 | 58.0 | 4.48e-01 | 76.6% | 53.7% |
| 3712893 | 605.1.1.307 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › CEP76_N | 0.79 | 60.0 | 5.40e-01 | 83.0% | 61.5% |
| 3656725 | 1008.1.1.0 ↗ | alpha bundles › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain | 0.79 | 57.0 | 4.72e-01 | 76.6% | 46.3% |
| 3570117 | 375.6.1.2 ↗ | few secondary structure elements › Rubredoxin-like › FlhC-like › FlhC-like › PF31275 | 0.78 | 59.0 | 5.43e-01 | 83.0% | 63.3% |
| 3971539 | 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 | 0.78 | 54.0 | 4.55e-01 | 72.3% | 64.0% |
| 3491670 | 614.1.1.0 ↗ | alpha duplicates or obligate multimers › L27 domain › L27 domain › L27 domain | 0.77 | 61.0 | 5.78e-01 | 89.4% | 72.7% |
| 3229793 | 198.1.1.0 ↗ | alpha arrays › Saposin-like › Saposin-like › Saposin-like | 0.74 | 61.0 | 5.00e-01 | 91.5% | 56.5% |
| 3950977 | 5058.1.1.9 ↗ | alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Colicin_V | 0.73 | 62.0 | 4.24e-01 | 97.9% | 28.4% |
| 4568335 | 3812.1.1.8 ↗ | alpha bundles › Type III secretion protein YscE › Type III secretion protein YscE › Type III secretion protein YscE › DUF5398 | 0.72 | 54.0 | 4.74e-01 | 80.9% | 58.0% |
| 4648753 | 605.1.1.278 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Attractin | 0.72 | 60.0 | 5.66e-01 | 97.9% | 83.3% |
| 3707590 | 5079.1.1.4 ↗ | alpha duplicates or obligate multimers › Magnesium transporter MgtE membrane domain › Magnesium transporter MgtE membrane domain › Magnesium transporter MgtE membrane domain › TM_HPP | 0.72 | 55.0 | 3.76e-01 | 100.0% | 24.2% |
| 3956258 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.71 | 60.0 | 4.13e-01 | 100.0% | 27.7% |
| 3828275 | 219.1.1.71 ↗ | a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › PDDEXK_6 | 0.71 | 55.0 | 3.66e-01 | 85.1% | 22.2% |
| 3957837 | 2484.1.1.199 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Transposase_mut | 0.70 | 56.0 | 3.72e-01 | 91.5% | 21.0% |
| 4937749 | 206.1.3.1 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › DNA_ligase_A_M | 0.70 | 52.0 | 3.08e-01 | 89.4% | 11.2% |
| 3969538 | 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 | 0.69 | 54.0 | 5.11e-01 | 83.0% | 76.4% |
| 3763471 | 2004.1.1.152 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › KAP_NTPase | 0.69 | 62.0 | 3.67e-01 | 100.0% | 60.0% |
| 2814929 | 150.1.1.14 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › EncFtn-like | 0.68 | 52.0 | 4.60e-01 | 83.0% | 60.3% |
| 4059363 | 142.3.1.1 ↗ | alpha complex topology › Sigma2 domain-like › Mitochondrial morphogenesis protein Sld7 C-terminal domain › Mitochondrial morphogenesis protein Sld7 C-terminal domain › Sld7_C | 0.68 | 57.0 | 4.74e-01 | 100.0% | 52.2% |
| 3755839 | 601.1.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin | 0.67 | 47.0 | 3.95e-01 | 74.5% | 43.8% |
| 4957559 | 283.2.1.2 ↗ | a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › Phage_sheath_1C | 0.65 | 53.0 | 4.12e-01 | 89.4% | 81.0% |
| 3234609 | 192.6.1.10 ↗ | alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain › WHEP-TRS | 0.64 | 48.0 | 4.71e-01 | 78.7% | 80.0% |
| 3588172 | 10.12.1.0 ↗ | beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix | 0.64 | 58.0 | 4.01e-01 | 100.0% | 89.3% |
| 3949098 | 283.2.1.2 ↗ | a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › Phage_sheath_1C | 0.64 | 54.0 | 4.09e-01 | 100.0% | 40.0% |
| 3782810 | 103.1.1.14 ↗ | alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_4 | 0.62 | 42.0 | 4.23e-01 | 74.5% | 70.0% |
| 4344201 | 864.1.1.0 ↗ | a+b two layers › DLC › DLC › DLC | 0.62 | 43.0 | 3.52e-01 | 72.3% | 37.8% |
| 2055367 | 650.1.1.3 ↗ | alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain › HsbA | 0.62 | 51.0 | 4.49e-01 | 91.5% | 61.4% |
| 3957955 | 605.1.1.13 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Transposase_mut | 0.62 | 50.0 | 4.22e-01 | 100.0% | 55.6% |
| 171404 | 101.11.1.0 ↗ | alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 | 0.61 | 52.0 | 4.48e-01 | 100.0% | 60.3% |
| 3605318 | 109.4.1.2084 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF7051 | 0.59 | 41.0 | 2.73e-01 | 72.3% | 37.9% |