←Back to structures
NC_005345.2__NP_958250.1__VWBp08__00009
Bact-VirNC_005345.2__NP_958250.1__VWBp08__00009
Identity
- Accession:
- NC_005345 ↗
- Kingdom:
- phage
Quality
94.1
mean pLDDT
Taxonomy
TaxID: 10702
Cluster
View cluster (83 members)3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
medium
residues 1-35_110-256
Domain cluster:
rep: NODE_14_length_293356_cov_397-335986_prodigal-single.1__X__X__00305__D1-30_125-201_444-525
CATH (10)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5zyuA01 | 3.90.320.10 | Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › | 0.75 | 66.0 | 6.41e-01 | 91.8% | 100.0% |
| 3ajvC02 | 3.40.1350.10 | Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › | 0.71 | 36.0 | 4.99e-01 | 90.7% | 97.8% |
| 3h4rA00 | 3.90.320.10 | Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › | 0.69 | 60.0 | 5.62e-01 | 91.8% | 92.2% |
| 7mi4A01 | 3.90.320.10 | Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › | 0.66 | 55.0 | 5.37e-01 | 86.3% | 84.1% |
| 4ic1D00 | 3.90.320.10 | Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › | 0.65 | 57.0 | 5.51e-01 | 98.9% | 81.6% |
| 8d3mI01 | 3.90.320.10 | Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › | 0.64 | 53.0 | 5.08e-01 | 86.3% | 81.6% |
| 2fokA03 | 3.40.91.30 | Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › | 0.55 | 38.0 | 3.90e-01 | 72.0% | 72.6% |
| 2ezvA01 | 3.40.600.40 | Alpha Beta › 3-Layer(aba) Sandwich › ECO RV Endonuclease; Chain A › Type II restriction enzyme SfiI, multifunctional domain | 0.53 | 34.0 | 3.34e-01 | 70.9% | 58.4% |
| 2og4A01 | 3.40.140.10 | Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 | 0.51 | 39.0 | 3.53e-01 | 77.5% | 69.3% |
| 1egaA02 | 3.30.300.20 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain | 0.50 | 29.0 | 3.65e-01 | 85.2% | 96.2% |
ECOD (59)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3502069 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.84 | 55.0 | 5.94e-01 | 78.6% | 75.6% |
| 3475068 | 2008.1.1.29 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 | 0.80 | 68.0 | 5.77e-01 | 87.9% | 99.6% |
| 3253903 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.80 | 76.0 | 7.03e-01 | 98.4% | 97.7% |
| 3480310 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.80 | 69.0 | 6.38e-01 | 90.1% | 94.7% |
| 3761598 | 2008.1.1.29 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 | 0.79 | 66.0 | 5.38e-01 | 86.3% | 78.4% |
| 3666060 | 2008.1.1.29 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 | 0.78 | 66.0 | 5.47e-01 | 86.8% | 81.0% |
| 3837602 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.78 | 67.0 | 5.50e-01 | 88.5% | 73.1% |
| 3629495 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.78 | 72.0 | 5.97e-01 | 95.1% | 92.8% |
| 4107642 | 2008.1.1.29 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 | 0.78 | 66.0 | 5.63e-01 | 86.8% | 90.4% |
| 3268889 | 2008.1.1.29 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 | 0.78 | 65.0 | 5.25e-01 | 86.3% | 80.0% |
| 3414564 | 2008.1.1.29 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 | 0.78 | 65.0 | 5.49e-01 | 86.8% | 80.4% |
| 3221910 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.77 | 71.0 | 6.15e-01 | 95.1% | 96.2% |
| 3788546 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.77 | 66.0 | 5.52e-01 | 88.5% | 83.5% |
| 3689992 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.77 | 65.0 | 5.42e-01 | 87.9% | 81.4% |
| 3172160 | 2008.1.1.29 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 | 0.77 | 63.0 | 5.73e-01 | 85.2% | 100.0% |
| 3744035 | 2008.1.1.29 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 | 0.76 | 65.0 | 5.61e-01 | 87.9% | 87.2% |
| 4876381 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.76 | 60.0 | 6.51e-01 | 80.8% | 95.4% |
| 3927949 | 2008.1.1.29 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 | 0.74 | 63.0 | 5.68e-01 | 87.4% | 100.0% |
| 3992384 | 2008.1.1.29 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 | 0.74 | 63.0 | 5.83e-01 | 87.4% | 100.0% |
| 4290285 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.74 | 70.0 | 6.20e-01 | 98.4% | 88.2% |
| 4938605 | 2008.1.1.4 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 | 0.74 | 62.0 | 5.60e-01 | 86.8% | 92.3% |
| 4932093 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.74 | 63.0 | 5.46e-01 | 88.5% | 88.5% |
| 3614493 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.73 | 67.0 | 5.58e-01 | 96.2% | 100.0% |
| 5056632 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.73 | 60.0 | 5.44e-01 | 86.3% | 90.4% |
| 4953680 | 2008.1.1.4 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 | 0.72 | 60.0 | 5.29e-01 | 86.8% | 90.3% |
| 4958436 | 2008.1.1.217 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UvrD-helicase | 0.72 | 62.0 | 3.76e-01 | 90.1% | 89.8% |
| 4314348 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.72 | 60.0 | 5.97e-01 | 86.8% | 87.9% |
| 4943167 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.72 | 61.0 | 5.60e-01 | 88.5% | 89.1% |
| 5046282 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.72 | 51.0 | 5.36e-01 | 72.0% | 97.6% |
| 4959669 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.72 | 60.0 | 5.45e-01 | 87.9% | 92.9% |
| 3961440 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.70 | 56.0 | 4.51e-01 | 83.0% | 94.1% |
| 2439587 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.70 | 66.0 | 5.95e-01 | 98.4% | 87.6% |
| 1233603 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.69 | 58.0 | 4.44e-01 | 88.5% | 80.3% |
| 5042295 | 2008.2.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like | 0.69 | 36.0 | 4.91e-01 | 89.6% | 100.0% |
| 3976411 | 2008.1.1.58 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF3799 | 0.69 | 65.0 | 5.72e-01 | 99.5% | 93.3% |
| 4947545 | 2008.1.1.4 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 | 0.69 | 61.0 | 6.01e-01 | 92.3% | 88.4% |
| 4178688 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.68 | 62.0 | 4.75e-01 | 94.5% | 84.8% |
| 4028354 | 2008.1.1.97 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Exo5 | 0.68 | 61.0 | 5.18e-01 | 93.4% | 89.6% |
| 5024521 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.68 | 57.0 | 4.50e-01 | 88.5% | 71.8% |
| 5060524 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.68 | 56.0 | 5.40e-01 | 86.3% | 87.3% |
| 3457392 | 2008.1.1.97 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Exo5 | 0.67 | 61.0 | 5.13e-01 | 95.1% | 89.3% |
| 4010258 | 2008.1.1.58 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF3799 | 0.67 | 64.0 | 5.53e-01 | 100.0% | 92.1% |
| 3336952 | 2008.1.1.50 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › YqaJ | 0.67 | 64.0 | 5.61e-01 | 100.0% | 82.4% |
| 4103907 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.67 | 60.0 | 4.66e-01 | 94.5% | 84.3% |
| 4942551 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.67 | 62.0 | 5.81e-01 | 100.0% | 80.9% |
| None | — | 0.67 | 60.0 | 5.05e-01 | 95.6% | 91.3% | |
| 5076203 | 2008.1.1.4 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 | 0.67 | 57.0 | 5.61e-01 | 89.0% | 84.6% |
| 3369565 | 2008.1.1.97 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Exo5 | 0.66 | 58.0 | 5.22e-01 | 91.8% | 99.6% |
| 5075190 | 2008.1.1.4 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 | 0.66 | 49.0 | 5.25e-01 | 87.4% | 86.9% |
| 3555330 | 2008.1.1.97 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Exo5 | 0.66 | 60.0 | 5.06e-01 | 95.6% | 89.8% |
| 4648357 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.66 | 59.0 | 3.57e-01 | 95.6% | 55.7% |
| 4555637 | 2008.1.1.4 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 | 0.64 | 52.0 | 5.29e-01 | 86.3% | 86.1% |
| 4062847 | 2008.1.1.18 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › eIF-3_zeta | 0.61 | 57.0 | 4.44e-01 | 100.0% | 77.1% |
| 3735828 | 2008.1.1.18 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › eIF-3_zeta | 0.60 | 56.0 | 4.27e-01 | 100.0% | 73.8% |
| 3972352 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.60 | 53.0 | 4.34e-01 | 94.0% | 73.4% |
| 5078220 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.59 | 52.0 | 4.90e-01 | 93.4% | 98.1% |
| 4009644 | 2008.1.1.160 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PF27151 | 0.51 | 35.0 | 3.60e-01 | 71.4% | 70.5% |
| 3612039 | 2492.1.1.13 ↗ | a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › PROCT | 0.51 | 39.0 | 3.38e-01 | 78.0% | 60.8% |
| 1397885 | 2008.1.1.16 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat | 0.51 | 33.0 | 3.24e-01 | 71.4% | 58.9% |
D2
medium
residues 36-109
Domain cluster:
representative
CATH (8)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 6h9xA01 | 1.10.287.40 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain | 0.72 | 51.0 | 4.53e-01 | 73.0% | 54.9% |
| 3favD00 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.70 | 48.0 | 4.74e-01 | 77.0% | 67.9% |
| 2e9xA01 | 1.20.58.1030 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.63 | 46.0 | 3.83e-01 | 77.0% | 52.3% |
| 2jbrA03 | 1.20.140.10 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 | 0.60 | 44.0 | 3.30e-01 | 78.4% | 58.4% |
| 3teqB00 | 1.10.287.3550 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.58 | 43.0 | 3.84e-01 | 77.0% | 72.3% |
| 2i44B00 | 3.60.40.10 | Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain | 0.57 | 43.0 | 2.84e-01 | 81.1% | 31.0% |
| 3bg2A03 | 1.10.3410.10 | Mainly Alpha › Orthogonal Bundle › putative deoxyguanosinetriphosphate triphosphohydrolase fold › putative deoxyguanosinetriphosphate triphosphohydrolase like domain | 0.55 | 38.0 | 3.55e-01 | 71.6% | 86.5% |
| 3a98A02 | 1.20.1270.350 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Dedicator of cytokinesis N-terminal subdomain | 0.55 | 37.0 | 3.60e-01 | 71.6% | 98.9% |
ECOD (8)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4972431 | 5043.1.1.0 ↗ | extended segments › Sensor proteins transmembrane domains › Htr2 transmembrane domain-like › Htr2 transmembrane domain-like | 0.71 | 49.0 | 4.67e-01 | 82.4% | 62.4% |
| 3737705 | 605.4.1.4 ↗ | alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein › DUF202 | 0.71 | 50.0 | 4.48e-01 | 86.5% | 54.0% |
| 3518448 | 11.2.1.7 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › Anillin | 0.66 | 44.0 | 3.16e-01 | 70.3% | 23.9% |
| 5051415 | 150.1.1.3 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Rubrerythrin | 0.65 | 44.0 | 3.39e-01 | 77.0% | 31.5% |
| 3250460 | 5041.1.1.13 ↗ | extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATG2_CAD | 0.64 | 49.0 | 4.54e-01 | 82.4% | 70.5% |
| 4540106 | 3396.1.1.3 ↗ | extended segments › HIG1 domain family member 1A › HIG1 domain family member 1A › HIG1 domain family member 1A › DUF4481 | 0.60 | 49.0 | 4.82e-01 | 90.5% | 86.3% |
| 3600712 | 192.5.1.0 ↗ | alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat | 0.56 | 45.0 | 4.36e-01 | 87.8% | 80.0% |
| 4026843 | 5058.1.1.0 ↗ | alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region | 0.52 | 39.0 | 3.99e-01 | 85.1% | 94.3% |