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NC_011356.1__YP_002274190.1__YYZ_gp54__00054
Bact-VirNC_011356.1__YP_002274190.1__YYZ_gp54__00054
Identity
- Accession:
- NC_011356 ↗
- Kingdom:
- phage
Quality
71.7
mean pLDDT
Taxonomy
TaxID: 564886
Cluster
View cluster (5 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
high
residues 507-555_670-713
D2
high
residues 563-658
D3
high
residues 728-783
Domain cluster:
rep: MK493321.1__QBQ74980.1__RW110999_102__00095__D288-351
CATH (16)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1wvvB01 | 2.10.10.20 | Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 | 0.80 | 58.0 | 6.24e-01 | 76.8% | 97.9% |
| 3wx7A02 | 2.10.10.90 | Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › | 0.78 | 54.0 | 4.48e-01 | 71.4% | 51.6% |
| 1goiB03 | 2.10.10.20 | Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 | 0.78 | 57.0 | 5.93e-01 | 76.8% | 94.1% |
| 2rtsA00 | 2.10.10.20 | Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 | 0.77 | 55.0 | 5.07e-01 | 76.8% | 83.6% |
| 1yueA02 | 2.10.10.40 | Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › | 0.75 | 51.0 | 4.98e-01 | 71.4% | 95.1% |
| 1aiwA00 | 2.10.10.20 | Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 | 0.73 | 52.0 | 5.05e-01 | 75.0% | 90.3% |
| 4maaA02 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.73 | 52.0 | 3.70e-01 | 76.8% | 31.2% |
| 1r3eA02 | 2.30.130.10 | Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › PUA domain | 0.65 | 48.0 | 4.26e-01 | 82.1% | 95.2% |
| 4evqA02 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.62 | 48.0 | 3.52e-01 | 83.9% | 31.0% |
| 4l5rC02 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.62 | 42.0 | 3.73e-01 | 73.2% | 100.0% |
| 2nqwA00 | 3.30.465.10 | Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › | 0.59 | 40.0 | 3.53e-01 | 71.4% | 48.3% |
| 1b3mA02 | 3.30.9.10 | Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 | 0.56 | 39.0 | 2.69e-01 | 73.2% | 58.5% |
| 1pvdA02 | 3.40.50.1220 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › TPP-binding domain | 0.56 | 34.0 | 2.59e-01 | 76.8% | 21.4% |
| 3seeA00 | 2.60.120.260 | Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like | 0.55 | 41.0 | 2.83e-01 | 82.1% | 87.9% |
| 1xg9A02 | 3.10.25.20 | Alpha Beta › Roll › Methionyl-tRNA Fmet Formyltransferase; Chain A, domain 2 › | 0.55 | 39.0 | 3.80e-01 | 78.6% | 96.8% |
| 1iucA00 | 2.120.10.70 | Mainly Beta › 6 Propeller › Neuraminidase › Fucose-specific lectin | 0.51 | 36.0 | 2.30e-01 | 76.8% | 91.3% |
ECOD (19)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3971347 | 64.3.1.1 ↗ | beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 | 0.83 | 56.0 | 5.62e-01 | 71.4% | 84.5% |
| 5026481 | 64.3.1.3 ↗ | beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12_2 | 0.82 | 59.0 | 6.25e-01 | 76.8% | 90.0% |
| 4307941 | 64.3.1.1 ↗ | beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 | 0.81 | 58.0 | 5.70e-01 | 75.0% | 100.0% |
| 4009007 | 64.3.1.0 ↗ | beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain | 0.81 | 55.0 | 5.81e-01 | 71.4% | 96.0% |
| 3972100 | 64.3.1.0 ↗ | beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain | 0.80 | 58.0 | 5.49e-01 | 76.8% | 75.4% |
| 1694867 | 64.3.1.1 ↗ | beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 | 0.78 | 53.0 | 5.49e-01 | 71.4% | 96.2% |
| 2389402 | 64.3.1.0 ↗ | beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain | 0.77 | 56.0 | 5.71e-01 | 76.8% | 88.9% |
| 1291025 | 64.3.1.1 ↗ | beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 | 0.77 | 55.0 | 5.07e-01 | 76.8% | 83.6% |
| 4233290 | 64.3.1.0 ↗ | beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain | 0.75 | 53.0 | 5.58e-01 | 75.0% | 96.0% |
| 8553 | 64.3.1.3 ↗ | beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12_2 | 0.73 | 52.0 | 5.05e-01 | 75.0% | 90.3% |
| 4927245 | 1.1.9.1 ↗ | beta barrels › cradle loop barrel › RIFT-related › PUA domain › PUA | 0.68 | 52.0 | 4.37e-01 | 83.9% | 85.3% |
| 4016867 | 1.1.7.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C | 0.67 | 49.0 | 3.90e-01 | 78.6% | 67.8% |
| 2736862 | 64.3.1.0 ↗ | beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain | 0.66 | 46.0 | 4.36e-01 | 75.0% | 80.9% |
| 4949393 | 1.1.9.1 ↗ | beta barrels › cradle loop barrel › RIFT-related › PUA domain › PUA | 0.65 | 49.0 | 4.25e-01 | 83.9% | 91.1% |
| 3974709 | 2008.1.1.15 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › HSDR_N | 0.63 | 45.0 | 2.95e-01 | 76.8% | 26.5% |
| 4119514 | 2004.1.1.159 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M | 0.63 | 41.0 | 2.73e-01 | 76.8% | 16.1% |
| 4937821 | 2008.1.1.15 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › HSDR_N | 0.63 | 44.0 | 2.88e-01 | 76.8% | 26.3% |
| 3236716 | 2003.1.5.4 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PCMT | 0.62 | 45.0 | 2.74e-01 | 78.6% | 14.3% |
| 3212508 | 5.1.4.32 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Nucleoporin_N | 0.54 | 46.0 | 2.74e-01 | 98.2% | 26.5% |
D4
medium
residues 23-197_282-381
Domain cluster:
rep: IMGVR_UViG_3300035312_000244-3300035312-Ga0393750_008065_4082_5470__D34-230_308-363
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF04860.18 best | Phage_portal | 104.1 | 1.20e-29 | 53.8% | 42.1% |
| PF04860.18 | Phage_portal | 68.8 | 6.40e-19 | 37.1% | 31.1% |
CATH (4)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3kdrA02 | 3.40.140.120 | Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › | 0.81 | 38.0 | 5.74e-01 | 73.8% | 100.0% |
| 7sz2A01 | 3.30.720.50 | Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › | 0.55 | 20.0 | 3.32e-01 | 76.4% | 94.6% |
| 2mm0A00 | 2.10.70.110 | Mainly Beta › Ribbon › Complement Module; domain 1 › | 0.52 | 14.0 | 2.99e-01 | 73.1% | 100.0% |
| 5xctB01 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.52 | 17.0 | 2.54e-01 | 76.4% | 64.3% |
ECOD (8)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4891117 | 4038.1.1.11 ↗ | alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › SU10_portal | 0.67 | 62.0 | 4.87e-01 | 99.3% | 95.5% |
| 3943006 | 4038.1.1.1 ↗ | alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal | 0.65 | 62.0 | 6.05e-01 | 97.8% | 96.9% |
| 4031453 | 4038.1.1.1 ↗ | alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal | 0.62 | 54.0 | 5.66e-01 | 89.5% | 96.9% |
| 5082483 | 4038.1.1.1 ↗ | alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal | 0.59 | 42.0 | 4.95e-01 | 82.5% | 100.0% |
| 4424174 | 4038.1.1.0 ↗ | alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein | 0.57 | 54.0 | 5.26e-01 | 98.9% | 95.0% |
| 4410228 | 4038.1.1.1 ↗ | alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal | 0.55 | 52.0 | 5.28e-01 | 98.9% | 98.9% |
| 5039294 | 4038.1.1.1 ↗ | alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Phage_portal | 0.53 | 50.0 | 5.04e-01 | 98.2% | 98.2% |
| 3942126 | 4038.1.1.8 ↗ | alpha bundles › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Alpha-helical domain in upper collar protein › Abc1-like | 0.52 | 49.0 | 4.76e-01 | 98.9% | 94.8% |
D5
medium
residues 784-857
Domain cluster:
rep: OP172755.1__WAX11326.1__CB473P1_00039__00039__D159-232
CATH (8)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4oj5A02 | 2.10.10.80 | Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › | 0.69 | 48.0 | 4.87e-01 | 71.6% | 97.2% |
| 2rtsA00 | 2.10.10.20 | Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 | 0.64 | 57.0 | 5.78e-01 | 97.3% | 100.0% |
| 4maaA02 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.61 | 45.0 | 3.46e-01 | 78.4% | 37.1% |
| 4lqeA00 | 3.40.1350.140 | Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › MepB-like | 0.56 | 39.0 | 3.19e-01 | 73.0% | 77.2% |
| 1vbfA00 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.56 | 38.0 | 2.67e-01 | 70.3% | 25.0% |
| 6x05A01 | 2.130.10.10 | Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase | 0.54 | 37.0 | 2.41e-01 | 73.0% | 25.2% |
| 4m0hA01 | 2.60.120.1440 | Mainly Beta › Sandwich › Jelly Rolls › | 0.52 | 37.0 | 3.16e-01 | 79.7% | 61.2% |
| 3dasA00 | 2.120.10.30 | Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain | 0.50 | 41.0 | 2.78e-01 | 95.9% | 52.1% |
ECOD (6)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4887092 | 2002.1.1.0 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels | 0.71 | 52.0 | 5.00e-01 | 77.0% | 85.7% |
| 1291025 | 64.3.1.1 ↗ | beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 | 0.64 | 57.0 | 5.78e-01 | 97.3% | 100.0% |
| 4950782 | 1.1.9.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › PUA domain | 0.57 | 40.0 | 3.39e-01 | 74.3% | 73.8% |
| 3955634 | 4052.1.1.0 ↗ | beta complex topology › Acyl-CoA dehydrogenase middle domain-like › Acyl-CoA dehydrogenase middle domain-like › Acyl-CoA dehydrogenase middle domain-like | 0.57 | 39.0 | 3.84e-01 | 70.3% | 78.8% |
| 3449580 | 7502.1.1.2 ↗ | a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Brix | 0.52 | 37.0 | 2.78e-01 | 75.7% | 45.1% |
| None | — | 0.52 | 45.0 | 2.65e-01 | 97.3% | 20.2% |