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SR-VP_4-6_scaffold_141_4086954_prodigal-single.1__X__X__00292
Bact-VirSR-VP_4-6_scaffold_141_4086954_prodigal-single.1__X__X__00292
Identity
- Kingdom:
- phage
Quality
77.8
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 104-190
Domain cluster:
representative
CATH (25)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2bduA02 | 1.10.150.340 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain | 0.78 | 47.0 | 5.03e-01 | 85.1% | 70.3% |
| 6qj2A00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.73 | 44.0 | 2.87e-01 | 96.6% | 14.6% |
| 4w4kA00 | 1.10.287.850 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain | 0.69 | 50.0 | 5.16e-01 | 100.0% | 81.7% |
| 4ke2A00 | 6.10.140.1860 | Special › Helix non-globular › Helix Hairpins › | 0.66 | 60.0 | 4.56e-01 | 100.0% | 70.4% |
| 3hr0B01 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.65 | 49.0 | 5.16e-01 | 100.0% | 89.9% |
| 1fs0G02 | 1.10.287.80 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain | 0.62 | 50.0 | 5.05e-01 | 100.0% | 87.6% |
| 1c17M00 | 1.20.120.220 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › ATP synthase, F0 complex, subunit A | 0.62 | 44.0 | 3.85e-01 | 94.3% | 47.2% |
| 7e84A03 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.61 | 54.0 | 4.71e-01 | 93.1% | 74.0% |
| 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 | 0.61 | 55.0 | 4.14e-01 | 98.9% | 81.6% |
| 2p92A00 | 3.30.70.1490 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cysteine protease Prp | 0.60 | 45.0 | 4.41e-01 | 78.2% | 71.6% |
| 3na7A00 | 1.10.287.1490 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.59 | 53.0 | 3.85e-01 | 100.0% | 70.9% |
| 3p9aF00 | 1.10.132.80 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › | 0.59 | 34.0 | 2.92e-01 | 85.1% | 36.6% |
| 2g0iA00 | 3.30.70.1490 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cysteine protease Prp | 0.58 | 49.0 | 4.50e-01 | 92.0% | 71.2% |
| 5yk4A04 | 1.10.1420.10 | Mainly Alpha › Orthogonal Bundle › MutS, DNA mismatch repair protein; Chain A, domain 3 › | 0.57 | 48.0 | 4.14e-01 | 90.8% | 100.0% |
| 2yevB01 | 1.10.287.90 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.57 | 48.0 | 4.75e-01 | 92.0% | 88.2% |
| 2o36A02 | 1.10.1370.10 | Mainly Alpha › Orthogonal Bundle › Neurolysin; domain 3 › Neurolysin, domain 3 | 0.57 | 51.0 | 3.29e-01 | 96.6% | 29.6% |
| 4cgkA01 | 6.10.250.3150 | Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.55 | 49.0 | 3.67e-01 | 100.0% | 72.9% |
| 1l3aA00 | 2.30.31.10 | Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A | 0.54 | 45.0 | 3.70e-01 | 94.3% | 80.7% |
| 1fxkB00 | 1.10.287.370 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.53 | 48.0 | 4.46e-01 | 100.0% | 80.7% |
| 4djbA00 | 3.30.70.2870 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Mastadenovirus E4 ORF3 | 0.53 | 43.0 | 3.90e-01 | 88.5% | 65.3% |
| 3rpjA00 | 3.30.310.230 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Sigma factor-binding protein Crl monomer | 0.52 | 43.0 | 3.78e-01 | 88.5% | 88.1% |
| 1l8dA00 | 1.10.287.510 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.52 | 47.0 | 4.50e-01 | 100.0% | 89.3% |
| 4nkbA01 | 3.30.1120.120 | Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › | 0.52 | 38.0 | 3.50e-01 | 78.2% | 93.0% |
| 1r3bA01 | 1.20.140.30 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › MOB kinase activator | 0.50 | 40.0 | 3.26e-01 | 88.5% | 52.9% |
| 1e3hA03 | 3.30.230.70 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › GHMP Kinase, N-terminal domain | 0.50 | 43.0 | 3.24e-01 | 94.3% | 98.1% |
ECOD (53)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4386701 | 310.2.1.35 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › PF28954 | 0.81 | 57.0 | 4.71e-01 | 94.3% | 43.4% |
| 3280119 | 4177.1.1.0 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like | 0.74 | 54.0 | 4.20e-01 | 97.7% | 36.7% |
| 3223646 | 109.4.1.1223 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_DOP1B | 0.70 | 42.0 | 3.11e-01 | 88.5% | 23.6% |
| 4946547 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.70 | 51.0 | 4.61e-01 | 96.6% | 55.8% |
| 3229431 | 633.23.1.14 ↗ | alpha bundles › Bromodomain-like › Claudin › Claudin › Claudin_3 | 0.70 | 51.0 | 4.03e-01 | 95.4% | 38.8% |
| 3460773 | 150.5.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like | 0.68 | 53.0 | 4.94e-01 | 97.7% | 66.4% |
| 4244236 | 3681.1.1.0 ↗ | a+b complex topology › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit | 0.64 | 58.0 | 5.28e-01 | 95.4% | 90.0% |
| 3982740 | 5086.1.1.190 ↗ | alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › OEP | 0.62 | 53.0 | 4.13e-01 | 96.6% | 48.0% |
| 3388013 | 1075.4.1.7 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › SbmA_BacA | 0.62 | 57.0 | 3.73e-01 | 100.0% | 64.1% |
| 4965179 | 5040.1.1.0 ↗ | extended segments › Cytochrome c oxidase subunit II-like, transmembrane region › Cytochrome c oxidase subunit II-like, transmembrane region › Cytochrome c oxidase subunit II-like, transmembrane region | 0.62 | 45.0 | 4.82e-01 | 98.9% | 89.3% |
| 3207595 | 3343.1.1.2 ↗ | alpha complex topology › gamma-tubulin complex protein 4 (GCP4) › gamma-tubulin complex protein 4 (GCP4) › gamma-tubulin complex protein 4 (GCP4) › GCP_C_terminal,GCP_N_terminal | 0.62 | 53.0 | 3.16e-01 | 98.9% | 42.8% |
| 3170708 | 632.1.1.6 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › Pho88 | 0.60 | 55.0 | 4.58e-01 | 98.9% | 67.6% |
| 1109690 | 5061.1.1.1 ↗ | alpha complex topology › Preprotein translocase SecY subunit › Preprotein translocase SecY subunit › Preprotein translocase SecY subunit › SecY | 0.60 | 54.0 | 3.43e-01 | 100.0% | 43.7% |
| 3385968 | 3755.3.1.0 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin | 0.60 | 51.0 | 3.86e-01 | 100.0% | 40.0% |
| 3191834 | 4207.1.1.1 ↗ | alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › RNA polymerase II holoenzyme component SRB7 (MED21) › Med21 | 0.60 | 52.0 | 4.43e-01 | 95.4% | 60.7% |
| 4189628 | 3567.1.1.53 ↗ | a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › GATA | 0.59 | 50.0 | 5.05e-01 | 88.5% | 100.0% |
| 4876714 | 4070.1.1.1 ↗ | alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M41 | 0.59 | 49.0 | 3.77e-01 | 92.0% | 80.4% |
| 4161991 | 604.12.1.4 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › ATG1-like_MIT1 | 0.59 | 50.0 | 4.17e-01 | 94.3% | 52.9% |
| 3219539 | 633.23.1.14 ↗ | alpha bundles › Bromodomain-like › Claudin › Claudin › Claudin_3 | 0.59 | 53.0 | 4.16e-01 | 97.7% | 95.4% |
| 4983091 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.59 | 51.0 | 4.50e-01 | 100.0% | 85.9% |
| 3694899 | 5069.1.1.71 ↗ | alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › DUF3176 | 0.59 | 53.0 | 4.04e-01 | 100.0% | 52.0% |
| 3542202 | 3755.3.1.44 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › JMY | 0.58 | 52.0 | 4.19e-01 | 100.0% | 51.5% |
| 3485296 | 192.2.1.1 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 | 0.58 | 53.0 | 4.98e-01 | 100.0% | 90.5% |
| 5069467 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.58 | 53.0 | 4.44e-01 | 100.0% | 82.1% |
| 3740226 | 5051.1.1.7 ↗ | alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Nramp | 0.58 | 51.0 | 3.23e-01 | 98.9% | 51.7% |
| 3399285 | 601.2.1.5 ↗ | alpha bundles › Four-helical up-and-down bundle › Cytochromes › Cytochromes › Ctr | 0.58 | 42.0 | 3.59e-01 | 100.0% | 45.3% |
| 4887185 | 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 | 0.58 | 52.0 | 4.85e-01 | 97.7% | 88.7% |
| 3676029 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.58 | 50.0 | 3.59e-01 | 97.7% | 41.9% |
| 3807880 | 3562.1.1.11 ↗ | alpha bundles › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › PGG | 0.58 | 52.0 | 4.09e-01 | 100.0% | 62.8% |
| 3517895 | 5054.1.1.59 ↗ | alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans, Ion_trans_2 | 0.57 | 52.0 | 3.39e-01 | 97.7% | 25.8% |
| 5060418 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.57 | 52.0 | 4.64e-01 | 100.0% | 89.2% |
| 3406351 | 192.2.1.0 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin | 0.57 | 52.0 | 4.82e-01 | 100.0% | 84.5% |
| 3413217 | 192.2.1.1 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 | 0.57 | 51.0 | 4.69e-01 | 100.0% | 83.5% |
| 5000789 | 192.2.1.1 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 | 0.57 | 51.0 | 4.84e-01 | 100.0% | 91.4% |
| 3792641 | 192.8.1.0 ↗ | alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain | 0.56 | 49.0 | 4.91e-01 | 97.7% | 92.2% |
| 3356382 | 3543.1.1.4 ↗ | alpha complex topology › Acid-activated urea channel › Acid-activated urea channel › Acid-activated urea channel › DUF716 | 0.56 | 50.0 | 3.56e-01 | 98.9% | 88.5% |
| 3202986 | 192.2.1.1 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 | 0.55 | 50.0 | 4.45e-01 | 100.0% | 80.0% |
| 4021113 | 601.1.1.90 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › DUF3433 | 0.55 | 47.0 | 3.77e-01 | 94.3% | 49.7% |
| 3448946 | 3567.1.1.124 ↗ | a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › Rx_N | 0.55 | 45.0 | 4.38e-01 | 100.0% | 80.0% |
| 3546316 | 3922.1.1.186 ↗ | 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 › WWC1 | 0.55 | 49.0 | 3.80e-01 | 96.6% | 63.2% |
| 3580612 | 5001.1.1.0 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like | 0.55 | 44.0 | 3.67e-01 | 100.0% | 49.0% |
| 4017372 | 192.2.1.1 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 | 0.55 | 50.0 | 4.52e-01 | 100.0% | 81.7% |
| 3269128 | 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 | 0.55 | 46.0 | 4.17e-01 | 89.7% | 74.8% |
| 4977598 | 192.2.1.1 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 | 0.54 | 49.0 | 4.53e-01 | 100.0% | 78.2% |
| 3727157 | 611.7.1.0 ↗ | alpha bundles › N-cbl like › Mixed lineage kinase domain-like (MLKL) N-terminal domain › Mixed lineage kinase domain-like (MLKL) N-terminal domain | 0.54 | 42.0 | 3.84e-01 | 98.9% | 60.0% |
| 3339462 | 5059.1.1.1 ↗ | alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA | 0.54 | 49.0 | 3.27e-01 | 100.0% | 82.4% |
| None | — | 0.53 | 42.0 | 2.67e-01 | 87.4% | 16.6% | |
| 4987009 | 3837.1.1.1 ↗ | alpha bundles › Uncharacterized conserved protein Dip1984 › Uncharacterized conserved protein Dip1984 › Uncharacterized conserved protein Dip1984 › DUF6847 | 0.53 | 44.0 | 3.69e-01 | 92.0% | 62.0% |
| 3535625 | 633.23.1.39 ↗ | alpha bundles › Bromodomain-like › Claudin › Claudin › PF26158 | 0.53 | 47.0 | 3.59e-01 | 96.6% | 95.8% |
| 3545474 | 327.11.2.0 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) | 0.52 | 39.0 | 3.91e-01 | 80.5% | 77.8% |
| 3772973 | 3755.3.1.295 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › WWC1 | 0.51 | 45.0 | 3.46e-01 | 96.6% | 86.7% |
| 3165049 | 3218.1.1.0 ↗ | a+b duplicates or obligate multimers › small terminase oligomerization domain › small terminase oligomerization domain › small terminase oligomerization domain | 0.51 | 35.0 | 3.91e-01 | 74.7% | 96.9% |
| 3576850 | 3937.1.1.2 ↗ | alpha bundles › Connexin 26 › Connexin 26 › Connexin 26 › Innexin | 0.50 | 43.0 | 3.01e-01 | 100.0% | 34.8% |
D2
medium
residues 39-103
Domain cluster:
representative
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4cmyA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.72 | 52.0 | 3.84e-01 | 75.4% | 57.1% |