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SR-VP_0-2_scaffold_141_2143444_prodigal-single.1__X__X__00004
Bact-VirSR-VP_0-2_scaffold_141_2143444_prodigal-single.1__X__X__00004
Identity
- Kingdom:
- phage
Quality
81.3
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 182-245_259-290_340-350
Domain cluster:
rep: IMGVR_UViG_3300028663_000009-3300028663-Ga0309993_1305197__D31-138_182-193
CATH (12)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2pk8A00 | 3.30.2320.10 | Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain | 0.78 | 60.0 | 6.38e-01 | 86.9% | 92.6% |
| 2e0zC03 | 3.30.2320.10 | Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain | 0.75 | 63.0 | 6.67e-01 | 97.2% | 99.0% |
| 1ohgA02 | 3.30.2320.10 | Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain | 0.72 | 64.0 | 6.47e-01 | 96.3% | 97.1% |
| 2bx2L02 | 3.40.1260.20 | Alpha Beta › 3-Layer(aba) Sandwich › Hypothetical Protein Ychn; Chain: A, › Ribonuclease E, catalytic domain | 0.55 | 40.0 | 4.06e-01 | 79.4% | 74.5% |
| 1mabA02 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.54 | 45.0 | 3.34e-01 | 91.6% | 66.1% |
| 1vw4H00 | 3.90.1180.10 | Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L13p; Chain: A; › Ribosomal protein L13 | 0.53 | 41.0 | 3.77e-01 | 84.1% | 91.2% |
| 6a8mA01 | 3.40.350.10 | Alpha Beta › 3-Layer(aba) Sandwich › Creatine Amidinohydrolase; Chain A, domain 1 › Creatinase/prolidase N-terminal domain | 0.53 | 41.0 | 3.51e-01 | 83.2% | 76.0% |
| 2dm9A00 | 3.30.2320.30 | Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › ATP synthase, E subunit, C-terminal | 0.53 | 41.0 | 4.02e-01 | 91.6% | 77.1% |
| 6fwrA01 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.52 | 45.0 | 3.76e-01 | 99.1% | 88.5% |
| 3pqvA02 | 3.30.360.20 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › RNA 3'-terminal phosphate cyclase, insert domain | 0.51 | 31.0 | 3.29e-01 | 86.9% | 66.7% |
| 3lybC00 | 3.30.1330.40 | Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › RutC-like | 0.51 | 43.0 | 4.06e-01 | 95.3% | 99.3% |
| 3rycB02 | 3.30.1330.20 | Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Tubulin/FtsZ, C-terminal domain | 0.51 | 42.0 | 4.15e-01 | 91.6% | 93.9% |
ECOD (25)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2841997 | 2485.3.1.0 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 | 0.85 | 80.0 | 5.33e-01 | 100.0% | 52.1% |
| 3965498 | 2485.3.1.0 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 | 0.81 | 76.0 | 5.24e-01 | 100.0% | 76.9% |
| 4929755 | 2485.3.1.18 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid_4 | 0.79 | 72.0 | 5.21e-01 | 97.2% | 59.3% |
| 5041371 | 2485.3.1.0 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 | 0.79 | 72.0 | 5.10e-01 | 99.1% | 51.3% |
| 11367 | 2485.3.1.6 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › ENCP4 | 0.78 | 60.0 | 6.38e-01 | 86.9% | 92.6% |
| 3977525 | 2485.3.1.4 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_cap_P2 | 0.75 | 68.0 | 4.72e-01 | 98.1% | 72.7% |
| 4954548 | 2485.3.1.0 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 | 0.74 | 68.0 | 4.98e-01 | 99.1% | 55.6% |
| 5083777 | 2485.3.1.3 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid | 0.73 | 68.0 | 4.79e-01 | 100.0% | 80.0% |
| 3587769 | 2485.3.1.3 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid | 0.69 | 62.0 | 4.48e-01 | 97.2% | 52.8% |
| 3509016 | 3008.1.1.0 ↗ | a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 0.62 | 41.0 | 4.67e-01 | 75.7% | 91.3% |
| 4208853 | 3008.1.1.0 ↗ | a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 0.61 | 42.0 | 4.61e-01 | 87.9% | 88.2% |
| 4097188 | 298.4.1.2 ↗ | a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › FliH | 0.60 | 44.0 | 4.40e-01 | 92.5% | 74.5% |
| 4412841 | 298.4.1.0 ↗ | a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E | 0.59 | 44.0 | 4.13e-01 | 90.7% | 63.0% |
| 5056012 | 301.9.1.0 ↗ | a+b three layers › Bacillus chorismate mutase-like › HypA Ni-binding domain › HypA Ni-binding domain | 0.59 | 39.0 | 4.54e-01 | 82.2% | 97.3% |
| 4038524 | 298.4.1.2 ↗ | a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › FliH | 0.59 | 44.0 | 4.26e-01 | 91.6% | 70.8% |
| 5080692 | 298.4.1.1 ↗ | a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E | 0.58 | 40.0 | 3.52e-01 | 90.7% | 46.7% |
| 4177795 | 3008.1.1.0 ↗ | a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 0.58 | 40.0 | 4.42e-01 | 75.7% | 90.6% |
| 3617520 | 3008.1.1.0 ↗ | a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 0.57 | 40.0 | 4.45e-01 | 72.9% | 96.2% |
| 4481707 | 298.4.1.2 ↗ | a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › FliH | 0.57 | 42.0 | 4.15e-01 | 89.7% | 73.0% |
| 5044279 | 298.4.1.1 ↗ | a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E | 0.57 | 44.0 | 4.14e-01 | 89.7% | 66.9% |
| 4079005 | 298.4.1.6 ↗ | a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › T3SS_SCTL | 0.57 | 44.0 | 4.22e-01 | 89.7% | 71.2% |
| 4960220 | 298.4.1.1 ↗ | a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E | 0.55 | 40.0 | 3.99e-01 | 91.6% | 72.2% |
| 4652069 | 3008.1.1.0 ↗ | a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 0.53 | 37.0 | 3.98e-01 | 87.9% | 85.6% |
| 4352511 | 3008.1.1.0 ↗ | a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 0.53 | 38.0 | 4.05e-01 | 74.8% | 94.4% |
| 4964810 | 2004.1.1.49 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › UvrD-helicase | 0.52 | 45.0 | 2.71e-01 | 100.0% | 47.5% |
D2
medium
residues 1-62_152-181_291-337
Domain cluster:
representative
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4hvzA02 | 3.30.70.2970 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Protein of unknown function (DUF541), domain 2 | 0.66 | 40.0 | 4.36e-01 | 100.0% | 72.3% |
| 3qkbA00 | 3.30.110.70 | Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Hypothetical protein apc22750. Chain B | 0.66 | 37.0 | 4.34e-01 | 100.0% | 79.8% |
| 4eo0A00 | 3.30.110.160 | Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › | 0.56 | 40.0 | 4.44e-01 | 100.0% | 95.3% |
| 5k8mA02 | 3.30.70.360 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.56 | 38.0 | 3.97e-01 | 97.8% | 74.0% |
| 2c5dC01 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.56 | 27.0 | 3.04e-01 | 100.0% | 58.7% |
| 1r6yA00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.53 | 27.0 | 3.11e-01 | 97.8% | 63.1% |
ECOD (12)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4091380 | 304.133.1.1 ↗ | a+b two layers › Alpha-beta plaits › 26 kDa periplasmic immunogenic protein › 26 kDa periplasmic immunogenic protein › SIMPL | 0.68 | 40.0 | 4.42e-01 | 100.0% | 72.7% |
| 4101838 | 304.133.1.1 ↗ | a+b two layers › Alpha-beta plaits › 26 kDa periplasmic immunogenic protein › 26 kDa periplasmic immunogenic protein › SIMPL | 0.62 | 36.0 | 4.00e-01 | 100.0% | 70.9% |
| 3280291 | 304.133.1.1 ↗ | a+b two layers › Alpha-beta plaits › 26 kDa periplasmic immunogenic protein › 26 kDa periplasmic immunogenic protein › SIMPL | 0.62 | 36.0 | 3.74e-01 | 99.3% | 59.2% |
| 3632565 | 304.112.1.0 ↗ | a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain | 0.58 | 26.0 | 3.03e-01 | 100.0% | 56.8% |
| 5061052 | 11.1.1.148 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › FixG_C | 0.58 | 27.0 | 3.07e-01 | 99.3% | 56.0% |
| 4500557 | 304.109.1.1 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e › Ribosomal_L23 | 0.57 | 29.0 | 3.28e-01 | 97.8% | 61.9% |
| 3528829 | 11.1.1.1007 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF30308 | 0.56 | 27.0 | 3.05e-01 | 97.1% | 55.5% |
| 1598189 | 12.1.1.18 ↗ | beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › DUF3459 | 0.55 | 22.0 | 2.99e-01 | 94.2% | 71.6% |
| 3602459 | 304.25.1.1 ↗ | a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer | 0.54 | 32.0 | 3.50e-01 | 96.4% | 69.6% |
| 4959834 | 304.133.1.1 ↗ | a+b two layers › Alpha-beta plaits › 26 kDa periplasmic immunogenic protein › 26 kDa periplasmic immunogenic protein › SIMPL | 0.53 | 36.0 | 4.15e-01 | 98.6% | 97.0% |
| 3980482 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.52 | 26.0 | 3.06e-01 | 97.8% | 66.3% |
| 4875125 | 4169.1.2.1 ↗ | a+b three layers › Coronavirus spike protein receptor-binding domain › Coronavirus spike protein receptor-binding domain › Alpha-coronavirus spike protein receptor-binding domain › CoV_S1 | 0.50 | 19.0 | 2.61e-01 | 95.7% | 65.1% |
D3
medium
residues 97-151
Domain cluster:
representative
CATH (16)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2vxtI00 | 2.80.10.50 | Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › | 0.70 | 56.0 | 4.18e-01 | 94.5% | 96.2% |
| 1vw3C01 | 2.40.30.10 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors | 0.66 | 56.0 | 4.30e-01 | 98.2% | 41.2% |
| 4ohvA03 | 2.40.30.330 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Pre-mRNA cleavage complex subunit Clp1, C-terminal domain | 0.65 | 55.0 | 4.74e-01 | 96.4% | 62.9% |
| 3kptA03 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.63 | 48.0 | 3.98e-01 | 96.4% | 44.3% |
| 3f1sB02 | 2.40.10.10 | Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases | 0.62 | 49.0 | 4.22e-01 | 100.0% | 53.8% |
| 3kl9A02 | 2.40.30.40 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 | 0.61 | 50.0 | 4.62e-01 | 94.5% | 68.9% |
| 3lx7A01 | 2.30.30.140 | Mainly Beta › Roll › SH3 type barrels. › | 0.56 | 41.0 | 4.37e-01 | 96.4% | 95.7% |
| 3zn6A02 | 2.60.40.3410 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.55 | 45.0 | 3.90e-01 | 90.9% | 58.6% |
| 2mm0A00 | 2.10.70.110 | Mainly Beta › Ribbon › Complement Module; domain 1 › | 0.55 | 46.0 | 4.46e-01 | 96.4% | 96.9% |
| 4kbxA01 | 2.40.37.30 | Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › | 0.54 | 39.0 | 2.70e-01 | 92.7% | 20.1% |
| 1ut9A01 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.53 | 44.0 | 3.73e-01 | 96.4% | 54.1% |
| 1w99A03 | 2.100.10.10 | Mainly Beta › Aligned Prism › Vitelline Membrane Outer Layer Protein I, subunit A › Pesticidal crystal protein, central domain | 0.53 | 45.0 | 3.22e-01 | 100.0% | 48.9% |
| 4h40A01 | 2.60.40.3730 | Mainly Beta › Sandwich › Immunoglobulin-like › Fimbrillin-like | 0.52 | 42.0 | 3.22e-01 | 100.0% | 48.1% |
| 3qugA00 | 2.60.40.1850 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.52 | 41.0 | 3.47e-01 | 98.2% | 95.6% |
| 2w4lB00 | 3.40.140.10 | Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 | 0.51 | 43.0 | 3.12e-01 | 94.5% | 43.3% |
| 6ecaA02 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.51 | 43.0 | 3.65e-01 | 98.2% | 66.3% |
ECOD (7)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4460819 | 1.1.7.11 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM | 0.67 | 59.0 | 4.89e-01 | 100.0% | 56.0% |
| 5020886 | 304.7.1.0 ↗ | a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors | 0.63 | 40.0 | 3.95e-01 | 87.3% | 60.0% |
| 3503000 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.62 | 56.0 | 4.80e-01 | 98.2% | 91.8% |
| 3491785 | 4.1.1.140 ↗ | beta barrels › SH3 › SH3 › SH3 › Pif1_2B_dom | 0.57 | 48.0 | 3.81e-01 | 94.5% | 68.7% |
| 4505406 | 1.1.7.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C | 0.56 | 47.0 | 3.96e-01 | 96.4% | 59.0% |
| 5036397 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.55 | 39.0 | 3.41e-01 | 94.5% | 49.4% |
| 4002985 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.52 | 44.0 | 4.29e-01 | 98.2% | 91.7% |