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SR-VP_4-6_scaffold_141_4086954_prodigal-single.1__X__X__00172
Bact-VirSR-VP_4-6_scaffold_141_4086954_prodigal-single.1__X__X__00172
Identity
- Kingdom:
- phage
Quality
83.7
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 3-57
Domain cluster:
representative
CATH (29)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3p9aF00 | 1.10.132.80 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › | 0.73 | 42.0 | 3.13e-01 | 100.0% | 23.9% |
| 4ozjA00 | 3.30.70.120 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.70 | 43.0 | 3.52e-01 | 72.7% | 32.7% |
| 2fdoA00 | 3.30.1970.10 | Alpha Beta › 2-Layer Sandwich › AF2331-like fold › AF2331-like | 0.66 | 46.0 | 3.99e-01 | 94.5% | 45.2% |
| 4bqqB02 | 3.90.1750.20 | Alpha Beta › Alpha-Beta Complex › Hect, E3 ligase catalytic domain fold › Putative Large Serine Recombinase; Chain B, Domain 2 | 0.62 | 45.0 | 3.17e-01 | 80.0% | 79.5% |
| 3ce8A00 | 3.30.70.120 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.62 | 39.0 | 3.37e-01 | 72.7% | 39.3% |
| 1vdhA01 | 3.30.70.1030 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Apc35880; domain 1 | 0.58 | 49.0 | 3.76e-01 | 92.7% | 57.0% |
| 2ogkD00 | 3.30.1440.10 | Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 | 0.58 | 45.0 | 3.39e-01 | 87.3% | 80.3% |
| 3clqA04 | 3.90.1700.10 | Alpha Beta › Alpha-Beta Complex › v583 fold › v583 domain like | 0.57 | 47.0 | 3.46e-01 | 96.4% | 89.3% |
| 4mtnA01 | 3.30.1480.10 | Alpha Beta › 2-Layer Sandwich › N Utilization Substance Protein A; Chain:P; domain 4 › NusA, N-terminal domain | 0.57 | 37.0 | 3.11e-01 | 94.5% | 38.9% |
| 6xw5A01 | 2.40.510.10 | Mainly Beta › Beta Barrel › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Positive stranded ssRNA viruses | 0.56 | 39.0 | 2.79e-01 | 72.7% | 43.4% |
| 5dymA00 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.56 | 43.0 | 3.77e-01 | 90.9% | 89.6% |
| 3qwuA03 | 3.30.70.2160 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.56 | 41.0 | 3.15e-01 | 81.8% | 56.1% |
| 5cm2Z00 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.55 | 40.0 | 2.89e-01 | 81.8% | 50.5% |
| 1wjwA01 | 3.30.310.50 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Alpha-D-phosphohexomutase, C-terminal domain | 0.54 | 48.0 | 4.17e-01 | 100.0% | 64.7% |
| 2wnyA00 | 3.30.1440.10 | Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 | 0.54 | 39.0 | 3.00e-01 | 85.5% | 31.4% |
| 1tkjA00 | 3.40.630.10 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases | 0.54 | 47.0 | 3.01e-01 | 100.0% | 43.0% |
| 5vogA00 | 3.40.50.2020 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.54 | 42.0 | 3.08e-01 | 90.9% | 35.8% |
| 3ibwA00 | 3.30.70.260 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain | 0.52 | 46.0 | 4.13e-01 | 100.0% | 74.7% |
| 3dnhA01 | 2.30.110.10 | Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A | 0.52 | 34.0 | 2.52e-01 | 87.3% | 23.8% |
| 2pd1A01 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.52 | 44.0 | 3.72e-01 | 98.2% | 73.7% |
| 3i3lA02 | 3.30.390.160 | Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › | 0.52 | 42.0 | 3.29e-01 | 92.7% | 77.6% |
| 2g0qA01 | 3.10.490.10 | Alpha Beta › Roll › Hypothetical upf0131 protein ytfp › Gamma-glutamyl cyclotransferase-like | 0.52 | 35.0 | 2.87e-01 | 72.7% | 44.3% |
| 1whqA01 | 3.30.160.20 | Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › | 0.52 | 38.0 | 3.51e-01 | 78.2% | 95.8% |
| 2dqlA00 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.51 | 45.0 | 3.57e-01 | 100.0% | 88.7% |
| 2l48A00 | 3.30.70.2030 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.51 | 43.0 | 3.76e-01 | 100.0% | 62.4% |
| 3bzwF00 | 3.40.50.1110 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase | 0.51 | 41.0 | 2.74e-01 | 92.7% | 49.0% |
| 2nrqA00 | 3.30.1440.10 | Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 | 0.51 | 40.0 | 3.12e-01 | 90.9% | 81.8% |
| 1iujA00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.50 | 40.0 | 3.46e-01 | 98.2% | 73.5% |
| 4ivkA00 | 3.40.710.10 | Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily | 0.50 | 38.0 | 2.43e-01 | 94.5% | 33.9% |
ECOD (50)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3590219 | 304.5.1.7 ↗ | a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF2179 | 0.74 | 45.0 | 3.77e-01 | 76.4% | 37.8% |
| 3730463 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.70 | 58.0 | 4.35e-01 | 89.1% | 83.8% |
| 3234667 | 5001.1.1.41 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw | 0.68 | 56.0 | 3.52e-01 | 100.0% | 17.0% |
| 3367891 | 109.4.1.1272 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, E_motif | 0.68 | 38.0 | 2.34e-01 | 100.0% | 9.1% |
| 957528 | 7547.1.1.1 ↗ | a/b three-layered sandwiches › Hypothetical protein TT1679 › Hypothetical protein TT1679 › Hypothetical protein TT1679 › Antibiotic_NAT | 0.67 | 48.0 | 3.22e-01 | 78.2% | 21.3% |
| 5075144 | 101.1.9.16 ↗ | alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_17 | 0.66 | 52.0 | 4.71e-01 | 85.5% | 62.7% |
| 3466238 | 206.1.1.14 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › ABC1 | 0.66 | 58.0 | 3.42e-01 | 100.0% | 19.1% |
| 4179803 | 4964.1.1.2 ↗ | alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › RNA_pol | 0.66 | 41.0 | 2.82e-01 | 78.2% | 17.0% |
| 3798829 | 5001.1.1.1 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 | 0.65 | 55.0 | 3.72e-01 | 100.0% | 39.6% |
| 4413612 | 242.1.1.0 ↗ | a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases | 0.64 | 49.0 | 3.86e-01 | 83.6% | 77.5% |
| 3941757 | 101.1.9.32 ↗ | alpha arrays › HTH › HTH › Putative DNA-binding domain › ANT | 0.64 | 46.0 | 3.59e-01 | 80.0% | 47.7% |
| 3594086 | 267.1.1.0 ↗ | a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain | 0.63 | 50.0 | 3.30e-01 | 94.5% | 76.9% |
| 3176771 | 7516.1.1.7 ↗ | a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › UDPGP | 0.62 | 46.0 | 2.79e-01 | 83.6% | 11.1% |
| 3586391 | 3937.1.1.2 ↗ | alpha bundles › Connexin 26 › Connexin 26 › Connexin 26 › Innexin | 0.62 | 52.0 | 3.33e-01 | 100.0% | 36.1% |
| 3937747 | 5001.1.1.1 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 | 0.62 | 44.0 | 2.79e-01 | 98.2% | 14.0% |
| 4970516 | 2003.6.1.0 ↗ | a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like | 0.62 | 47.0 | 3.57e-01 | 83.6% | 60.0% |
| 3251044 | 242.1.1.2 ↗ | a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_2 | 0.61 | 44.0 | 3.26e-01 | 89.1% | 27.9% |
| 3791945 | 5054.1.1.2 ↗ | alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans | 0.61 | 49.0 | 3.29e-01 | 90.9% | 32.0% |
| 4947062 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.61 | 48.0 | 4.13e-01 | 90.9% | 92.6% |
| 3494392 | 3937.1.1.2 ↗ | alpha bundles › Connexin 26 › Connexin 26 › Connexin 26 › Innexin | 0.58 | 50.0 | 3.04e-01 | 100.0% | 33.0% |
| 4183868 | 878.1.1.1 ↗ | a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 | 0.57 | 48.0 | 4.33e-01 | 96.4% | 100.0% |
| 5003912 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.57 | 46.0 | 3.48e-01 | 98.2% | 77.5% |
| 4988082 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.56 | 40.0 | 3.78e-01 | 78.2% | 98.6% |
| 3510702 | 2004.1.1.107 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DnaB_C | 0.56 | 33.0 | 2.17e-01 | 90.9% | 12.8% |
| 4997255 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.56 | 44.0 | 3.75e-01 | 92.7% | 89.0% |
| 3480623 | 284.1.3.0 ↗ | a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain | 0.55 | 37.0 | 3.35e-01 | 76.4% | 48.1% |
| 4538961 | 304.14.1.1 ↗ | a+b two layers › Alpha-beta plaits › Sporulation related repeat (SPOR) › Sporulation related repeat (SPOR) › SPOR | 0.55 | 40.0 | 3.67e-01 | 78.2% | 57.3% |
| 3376944 | 304.9.1.0 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD | 0.55 | 35.0 | 2.91e-01 | 76.4% | 33.3% |
| 3589192 | 101.1.1.68 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › HTH_38 | 0.55 | 39.0 | 3.55e-01 | 76.4% | 57.5% |
| 3236563 | 3567.1.1.0 ↗ | a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer | 0.55 | 48.0 | 3.72e-01 | 100.0% | 44.8% |
| 4971395 | 242.1.1.0 ↗ | a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases | 0.55 | 43.0 | 3.75e-01 | 92.7% | 90.5% |
| 3602563 | 2007.1.5.14 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › ATC-like › PF27247 | 0.55 | 39.0 | 3.05e-01 | 74.5% | 95.2% |
| 3220485 | 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 | 2.82e-01 | 100.0% | 28.1% |
| 3512028 | 5001.1.1.5 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3 | 0.55 | 47.0 | 3.04e-01 | 100.0% | 20.4% |
| 3187032 | 3926.1.1.1 ↗ | alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D | 0.55 | 46.0 | 3.17e-01 | 96.4% | 56.1% |
| 3494833 | 5001.1.1.1 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 | 0.54 | 43.0 | 2.66e-01 | 100.0% | 22.7% |
| 3726634 | 327.11.2.0 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) | 0.54 | 47.0 | 4.15e-01 | 100.0% | 66.3% |
| 3329735 | 327.11.2.37 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_DEAH11_1st | 0.54 | 46.0 | 4.29e-01 | 100.0% | 77.1% |
| 3306699 | 101.1.2.517 ↗ | alpha arrays › HTH › HTH › winged helix domain › RNA_pol_Rpc82, HTH_9, POLR3C_WHD | 0.53 | 46.0 | 2.77e-01 | 100.0% | 96.6% |
| 3692895 | 375.1.1.179 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › TFIIE_alpha | 0.53 | 47.0 | 3.09e-01 | 100.0% | 31.3% |
| 5075421 | 267.1.1.3 ↗ | a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase | 0.53 | 43.0 | 2.96e-01 | 100.0% | 92.9% |
| 3468223 | 101.1.2.90 ↗ | alpha arrays › HTH › HTH › winged helix domain › HTH_9 | 0.53 | 44.0 | 2.76e-01 | 98.2% | 99.1% |
| 4987009 | 3837.1.1.1 ↗ | alpha bundles › Uncharacterized conserved protein Dip1984 › Uncharacterized conserved protein Dip1984 › Uncharacterized conserved protein Dip1984 › DUF6847 | 0.53 | 44.0 | 3.26e-01 | 94.5% | 38.0% |
| 3578140 | 3937.1.1.2 ↗ | alpha bundles › Connexin 26 › Connexin 26 › Connexin 26 › Innexin | 0.52 | 42.0 | 2.64e-01 | 98.2% | 72.5% |
| 4004118 | 375.1.1.179 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › TFIIE_alpha | 0.52 | 45.0 | 3.15e-01 | 100.0% | 44.9% |
| 5050213 | 192.2.1.87 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › ATP-synt_D | 0.52 | 41.0 | 3.05e-01 | 100.0% | 28.9% |
| 4508433 | 314.1.1.3 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_2d | 0.52 | 46.0 | 2.75e-01 | 100.0% | 42.9% |
| 3165390 | 304.24.1.36 ↗ | a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › SPOR | 0.51 | 43.0 | 3.76e-01 | 100.0% | 62.5% |
| 4437052 | 167.1.1.1 ↗ | alpha arrays › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal_S7 | 0.51 | 41.0 | 3.03e-01 | 89.1% | 44.7% |
| 4518508 | 4271.1.1.3 ↗ | alpha complex topology › PriB N-terminal domain-like › PriB N-terminal domain-like › PriB N-terminal domain-like › DNA_primase_lrg_N | 0.51 | 42.0 | 2.94e-01 | 98.2% | 88.1% |