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SR-VP_0-2_scaffold_141_4556078_prodigal-single.1__X__X__00108
Bact-VirSR-VP_0-2_scaffold_141_4556078_prodigal-single.1__X__X__00108
Identity
- Kingdom:
- phage
Quality
89.1
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 9-144
Domain cluster:
representative
CATH (18)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5fgoA00 | 3.10.450.700 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › | 0.66 | 29.0 | 4.21e-01 | 74.3% | 90.3% |
| 3hlzB01 | 3.40.1000.10 | Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich | 0.65 | 38.0 | 3.78e-01 | 73.5% | 54.3% |
| 4h5bA00 | 3.30.1460.70 | Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › | 0.65 | 52.0 | 5.03e-01 | 85.3% | 88.2% |
| 1ul7A00 | 3.30.310.80 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 | 0.61 | 34.0 | 3.92e-01 | 72.1% | 73.5% |
| 2fggA01 | 3.30.160.240 | Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Rv1738 | 0.60 | 30.0 | 3.85e-01 | 75.0% | 85.3% |
| 2pwwA00 | 3.30.310.100 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › YugN-like | 0.59 | 41.0 | 4.47e-01 | 74.3% | 83.5% |
| 1kyfA02 | 3.30.310.10 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein | 0.59 | 35.0 | 3.75e-01 | 71.3% | 68.1% |
| 4ebrA00 | 3.30.1460.50 | Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › | 0.58 | 43.0 | 4.11e-01 | 77.2% | 91.1% |
| 3k1lA01 | 3.30.457.40 | Alpha Beta › 2-Layer Sandwich › Copper Amine Oxidase; Chain A, domain 1 › | 0.57 | 38.0 | 4.41e-01 | 80.9% | 100.0% |
| 2z6oA00 | 3.10.110.10 | Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme | 0.55 | 44.0 | 4.17e-01 | 86.8% | 77.1% |
| 4i79A00 | 2.130.10.10 | Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase | 0.55 | 36.0 | 2.77e-01 | 77.2% | 29.1% |
| 3wmyA00 | 2.115.10.20 | Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 | 0.54 | 41.0 | 3.14e-01 | 77.9% | 91.7% |
| 2v4jB02 | 3.30.413.10 | Alpha Beta › 2-Layer Sandwich › Sulfite Reductase Hemoprotein; domain 1 › Sulfite Reductase Hemoprotein, domain 1 | 0.53 | 45.0 | 4.14e-01 | 94.1% | 75.4% |
| 7b9cA02 | 2.130.10.10 | Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase | 0.52 | 42.0 | 3.06e-01 | 86.0% | 52.9% |
| 3stoA02 | 2.30.39.10 | Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 | 0.52 | 36.0 | 3.51e-01 | 70.6% | 90.4% |
| 3uaqB02 | 2.40.160.90 | Mainly Beta › Beta Barrel › Porin › | 0.51 | 37.0 | 3.48e-01 | 73.5% | 75.5% |
| 2giaB00 | 2.30.31.40 | Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › | 0.51 | 39.0 | 3.81e-01 | 79.4% | 77.4% |
| 2fpnA01 | 3.30.2030.10 | Alpha Beta › 2-Layer Sandwich › TBP-like › YwmB-like | 0.51 | 37.0 | 3.67e-01 | 100.0% | 72.1% |
ECOD (18)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 222386 | 241.1.1.6 ↗ | a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone › YbjN | 0.65 | 52.0 | 5.03e-01 | 85.3% | 88.2% |
| 5000822 | 1.1.7.14 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › CTP-dep_RFKase | 0.63 | 31.0 | 3.35e-01 | 89.7% | 53.3% |
| 4666593 | 241.1.1.2 ↗ | a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone › Autophagy_act_C | 0.61 | 45.0 | 4.31e-01 | 76.5% | 92.5% |
| 4104949 | 9.1.1.0 ↗ | beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins | 0.61 | 36.0 | 4.06e-01 | 87.5% | 75.2% |
| 3512529 | 216.1.1.2 ↗ | a+b two layers › UBC-like › UBC-like › UBC-like › Autophagy_act_C | 0.61 | 46.0 | 4.37e-01 | 77.9% | 91.9% |
| 4416182 | 241.15.1.3 ↗ | a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain › SPC25 | 0.60 | 43.0 | 4.76e-01 | 94.1% | 95.2% |
| 3794870 | 216.1.1.2 ↗ | a+b two layers › UBC-like › UBC-like › UBC-like › Autophagy_act_C | 0.59 | 44.0 | 4.17e-01 | 77.2% | 90.0% |
| 3395786 | 5.1.4.1 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 | 0.58 | 42.0 | 3.08e-01 | 77.2% | 29.2% |
| 3230598 | 216.1.1.0 ↗ | a+b two layers › UBC-like › UBC-like › UBC-like | 0.57 | 43.0 | 4.15e-01 | 77.2% | 90.7% |
| 3820181 | 216.1.1.4 ↗ | a+b two layers › UBC-like › UBC-like › UBC-like › RWD | 0.55 | 44.0 | 4.47e-01 | 85.3% | 85.9% |
| 3783266 | 223.2.1.33 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_3 | 0.53 | 32.0 | 3.39e-01 | 83.8% | 65.6% |
| 3487826 | 5.1.4.0 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed | 0.52 | 44.0 | 3.13e-01 | 93.4% | 49.4% |
| 3707878 | 5.1.2.33 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › BNR_3 | 0.52 | 41.0 | 3.26e-01 | 83.8% | 71.4% |
| 3171956 | 9.1.1.45 ↗ | beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › FBO_C | 0.52 | 36.0 | 3.52e-01 | 87.5% | 64.7% |
| 4023264 | 3692.1.1.0 ↗ | a+b two layers › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain | 0.52 | 38.0 | 3.64e-01 | 92.6% | 65.0% |
| 3541359 | 11.1.1.538 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CHRD | 0.51 | 33.0 | 3.53e-01 | 78.7% | 73.3% |
| 3722681 | 331.3.1.30 ↗ | a+b two layers › TBP-like › Bet v1-like › Bet v1-like › DUF3074 | 0.51 | 42.0 | 3.23e-01 | 87.5% | 86.2% |
| 3322788 | 3270.1.1.1 ↗ | a+b two layers › a+b domain in heme oxygenase › a+b domain in heme oxygenase › a+b domain in heme oxygenase › DUF2470 | 0.51 | 35.0 | 3.95e-01 | 80.9% | 97.0% |
D2
high
residues 185-266_375-451
Domain cluster:
rep: p39__YP_004928123__Hibiscus_green_spot_virus_2__1513278__D5-179
Pfam (4)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF13604.13 best | AAA_30 | 43.3 | 5.00e-11 | 89.9% | 63.9% |
| PF13245.13 | AAA_19 | 52.1 | 1.10e-13 | 81.1% | 99.2% |
| PF01443.25 | Viral_helicase1 | 30.3 | 5.20e-07 | 78.6% | 43.0% |
| PF00580.28 | UvrD-helicase | 49.7 | 5.90e-13 | 40.9% | 20.7% |
D3
high
residues 275-370
Domain cluster:
representative
CATH (19)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1t3qA02 | 1.10.150.120 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › [2Fe-2S]-binding domain | 0.65 | 51.0 | 5.47e-01 | 93.8% | 100.0% |
| 3h20A04 | 1.10.1240.50 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › | 0.62 | 42.0 | 4.33e-01 | 83.3% | 74.2% |
| 1u6zA03 | 1.10.3210.10 | Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 | 0.60 | 48.0 | 4.29e-01 | 90.6% | 80.1% |
| 2gfhA02 | 1.20.120.710 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Haloacid dehalogenase hydrolase-like domain | 0.58 | 45.0 | 4.72e-01 | 86.5% | 97.7% |
| 1oshA00 | 1.10.565.10 | Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor | 0.57 | 49.0 | 3.81e-01 | 94.8% | 81.9% |
| 1ad6A00 | 1.10.472.10 | Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like | 0.57 | 44.0 | 3.57e-01 | 82.3% | 82.2% |
| 1wwiA00 | 1.10.20.10 | Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A | 0.55 | 42.0 | 3.66e-01 | 80.2% | 87.8% |
| 5kdiA00 | 1.10.3520.10 | Mainly Alpha › Orthogonal Bundle › Glycolipid transfer protein, GLTP › Glycolipid transfer protein | 0.55 | 46.0 | 3.69e-01 | 95.8% | 81.5% |
| 1irxA04 | 1.10.10.770 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.55 | 48.0 | 4.65e-01 | 97.9% | 96.3% |
| 1abvA00 | 1.10.520.20 | Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › N-terminal domain of the delta subunit of the F1F0-ATP synthase | 0.55 | 45.0 | 4.40e-01 | 93.8% | 82.9% |
| 5x56B00 | 1.20.58.810 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Photosystem II Pbs27 | 0.55 | 34.0 | 3.37e-01 | 96.9% | 58.1% |
| 4m9aA01 | 1.10.540.10 | Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain | 0.54 | 40.0 | 3.75e-01 | 78.1% | 67.2% |
| 1uddA00 | 1.20.910.10 | Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like | 0.54 | 43.0 | 3.36e-01 | 87.5% | 79.5% |
| 3qnmA02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.53 | 43.0 | 4.39e-01 | 88.5% | 96.7% |
| 2jpnA00 | 1.20.1280.210 | Mainly Alpha › Up-down Bundle › Monooxygenase › Uncharacterised protein UvsW.1 | 0.53 | 36.0 | 3.87e-01 | 83.3% | 83.5% |
| 4nlbA02 | 1.10.150.80 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › HRDC domain | 0.53 | 40.0 | 4.04e-01 | 81.2% | 88.3% |
| 7m2wE01 | 1.20.120.1900 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Gamma-tubulin complex, C-terminal domain | 0.53 | 41.0 | 2.92e-01 | 84.4% | 78.7% |
| 3qdkA02 | 3.30.420.40 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain | 0.51 | 42.0 | 3.11e-01 | 89.6% | 79.0% |
| 7dl9A01 | 1.20.1250.20 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains | 0.51 | 42.0 | 3.35e-01 | 90.6% | 90.2% |
ECOD (17)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4561199 | 179.1.1.1 ↗ | alpha bundles › CO dehydrogenase ISP C-domain like › CO dehydrogenase ISP C-domain like › CO dehydrogenase ISP C-domain like › Fer2_2 | 0.70 | 52.0 | 5.57e-01 | 89.6% | 95.0% |
| 3944357 | 101.1.1.394 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › DUF4158 | 0.69 | 48.0 | 5.12e-01 | 71.9% | 81.2% |
| 4248316 | 325.1.1.0 ↗ | a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › CO dehydrogenase molybdoprotein N-domain-like | 0.68 | 49.0 | 3.79e-01 | 85.4% | 34.0% |
| 3830141 | 188.1.1.5 ↗ | alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Tcp11 | 0.60 | 51.0 | 3.80e-01 | 94.8% | 61.6% |
| 5032521 | 7014.1.1.1 ↗ | alpha bundles › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › BacA | 0.59 | 46.0 | 4.11e-01 | 83.3% | 79.3% |
| 4520559 | 592.2.1.1 ↗ | alpha arrays › PWI domain-like › YugE-like › YugE-like › DUF1871 | 0.59 | 46.0 | 4.87e-01 | 88.5% | 97.6% |
| 3641165 | 592.6.1.3 ↗ | alpha arrays › PWI domain-like › Pre-mRNA-splicing helicase BRR2 plug domain › Pre-mRNA-splicing helicase BRR2 plug domain › DExH14_plug | 0.59 | 47.0 | 4.53e-01 | 88.5% | 90.9% |
| 3693483 | 5050.1.1.8 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › FPN1 | 0.57 | 42.0 | 3.17e-01 | 78.1% | 74.7% |
| 4038171 | 4044.1.1.1 ↗ | alpha bundles › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Prismane | 0.57 | 32.0 | 3.35e-01 | 88.5% | 58.9% |
| 5038862 | 5051.1.1.1 ↗ | alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › SNF | 0.57 | 46.0 | 3.00e-01 | 88.5% | 55.6% |
| 3241544 | 631.1.1.1 ↗ | alpha arrays › Glycolipid transfer protein, GLTP › Glycolipid transfer protein, GLTP › Glycolipid transfer protein, GLTP › GLTP | 0.57 | 48.0 | 3.84e-01 | 96.9% | 84.1% |
| 3314669 | 5059.1.1.24 ↗ | alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › PUNUT | 0.56 | 50.0 | 3.44e-01 | 100.0% | 87.5% |
| 3283355 | 150.5.1.51 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › WXG100_2 | 0.55 | 30.0 | 3.22e-01 | 86.5% | 60.0% |
| 3832264 | 2004.1.1.184 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_11 | 0.54 | 43.0 | 2.79e-01 | 88.5% | 19.4% |
| 4999372 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.52 | 42.0 | 2.85e-01 | 87.5% | 36.7% |
| 3707006 | 3567.1.1.80 ↗ | a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › DUF747 | 0.52 | 42.0 | 2.94e-01 | 88.5% | 84.1% |
| 4324539 | 5050.1.1.0 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter | 0.51 | 39.0 | 2.94e-01 | 81.2% | 78.8% |
D4
medium
residues 456-501
Domain cluster:
representative
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 7jzhD01 | 4.10.280.50 | Few Secondary Structures › Irregular › MYOD Basic-Helix-Loop-Helix Domain, subunit B › | 0.60 | 35.0 | 3.30e-01 | 100.0% | 46.3% |