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SR-VP_0-2_scaffold_141_2510002_prodigal-single.1__X__X__00526
Bact-VirSR-VP_0-2_scaffold_141_2510002_prodigal-single.1__X__X__00526
Identity
- Kingdom:
- phage
Quality
67.2
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 173-274_321-331
Domain cluster:
rep: LacPavin_0818_WC45_scaffold_160996_curated_closed_complete_prodigal-single.1__X__X__00200__D14-128
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF07068.18 best | Gp23 | 48.2 | 1.60e-12 | 95.6% | 26.2% |
CATH (21)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 6xgpB01 | 3.30.1930.10 | Alpha Beta › 2-Layer Sandwich › capsid protein of prophage fold › capsid protein of prophage domain | 0.75 | 70.0 | 6.61e-01 | 100.0% | 97.8% |
| 3dktA02 | 3.30.2320.10 | Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain | 0.75 | 56.0 | 6.12e-01 | 100.0% | 93.7% |
| 1yueA03 | 3.30.2320.40 | Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › | 0.73 | 69.0 | 6.71e-01 | 100.0% | 95.0% |
| 3bjqA00 | 3.90.1690.10 | Alpha Beta › Alpha-Beta Complex › phage-related protein like fold › phage-related protein like domain | 0.70 | 64.0 | 4.67e-01 | 100.0% | 54.7% |
| 4h0pB02 | 3.30.420.40 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain | 0.64 | 47.0 | 3.76e-01 | 77.0% | 81.0% |
| 4h0oA02 | 3.30.420.40 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain | 0.62 | 46.0 | 3.76e-01 | 77.0% | 81.0% |
| 4lqbA00 | 3.10.180.10 | Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 | 0.60 | 41.0 | 3.98e-01 | 70.8% | 79.2% |
| 1cjxA01 | 3.10.180.10 | Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 | 0.60 | 43.0 | 3.98e-01 | 76.1% | 78.0% |
| 3p8aA02 | 2.60.40.4320 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.59 | 42.0 | 4.64e-01 | 74.3% | 94.4% |
| 1f1uA01 | 3.10.180.10 | Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 | 0.59 | 41.0 | 3.81e-01 | 72.6% | 78.4% |
| 6ioyC02 | 3.30.420.40 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain | 0.59 | 42.0 | 3.48e-01 | 74.3% | 79.6% |
| 4ak2A01 | 2.60.40.2720 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.56 | 41.0 | 4.11e-01 | 100.0% | 75.2% |
| 2ep5A02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.54 | 44.0 | 3.82e-01 | 87.6% | 100.0% |
| 1zh8A02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.54 | 46.0 | 3.93e-01 | 92.9% | 73.1% |
| 3k12D00 | 3.30.1330.40 | Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › RutC-like | 0.54 | 44.0 | 4.41e-01 | 90.3% | 85.8% |
| 3f4lA02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.54 | 44.0 | 3.56e-01 | 89.4% | 57.8% |
| 3db2B02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.52 | 43.0 | 3.61e-01 | 91.2% | 65.0% |
| 3e9mB02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.52 | 44.0 | 3.72e-01 | 93.8% | 65.7% |
| 4hadB02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.52 | 44.0 | 3.73e-01 | 94.7% | 58.5% |
| 1p9lA02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.51 | 43.0 | 4.47e-01 | 100.0% | 98.1% |
| 5kvsA02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.51 | 45.0 | 4.01e-01 | 99.1% | 68.5% |
ECOD (28)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3583655 | 2485.3.1.5 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Gp23 | 0.88 | 84.0 | 5.85e-01 | 100.0% | 53.1% |
| 4995674 | 2485.3.1.5 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Gp23 | 0.86 | 81.0 | 6.02e-01 | 100.0% | 60.1% |
| 4988094 | 2485.3.1.18 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid_4 | 0.73 | 68.0 | 5.10e-01 | 100.0% | 58.0% |
| 4815223 | 2485.3.1.7 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside | 0.69 | 64.0 | 5.15e-01 | 100.0% | 71.0% |
| 5002389 | 2485.3.1.0 ↗ | a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 | 0.68 | 63.0 | 4.65e-01 | 100.0% | 55.0% |
| 4995654 | 211.1.1.0 ↗ | a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase | 0.64 | 44.0 | 5.00e-01 | 84.1% | 100.0% |
| 154279 | 2484.1.1.12 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Acetate_kinase | 0.64 | 47.0 | 3.77e-01 | 77.0% | 81.7% |
| 4466150 | 2484.1.1.12 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Acetate_kinase | 0.61 | 44.0 | 3.65e-01 | 75.2% | 80.3% |
| 431522 | 211.1.1.0 ↗ | a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase | 0.59 | 42.0 | 4.59e-01 | 74.3% | 92.5% |
| 4088581 | 2002.1.1.121 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM,Mob_synth_C | 0.56 | 40.0 | 2.92e-01 | 74.3% | 39.7% |
| 3476211 | 2002.1.1.121 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM,Mob_synth_C | 0.56 | 40.0 | 3.21e-01 | 74.3% | 58.2% |
| 4532993 | 2002.1.1.121 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM,Mob_synth_C | 0.56 | 39.0 | 2.90e-01 | 73.5% | 40.6% |
| 4973362 | 314.1.1.0 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases | 0.55 | 49.0 | 3.52e-01 | 100.0% | 36.5% |
| 3488025 | 11.1.1.603 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_NUP210_4th | 0.55 | 44.0 | 4.53e-01 | 100.0% | 91.4% |
| 4423196 | 314.1.1.2 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_2b | 0.54 | 48.0 | 3.42e-01 | 100.0% | 34.4% |
| 4356341 | 2002.1.1.121 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM,Mob_synth_C | 0.54 | 38.0 | 2.74e-01 | 73.5% | 38.5% |
| 3522205 | 11.1.1.603 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_NUP210_4th | 0.53 | 44.0 | 4.52e-01 | 100.0% | 94.3% |
| 4946440 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.53 | 46.0 | 3.83e-01 | 94.7% | 86.0% |
| 5049458 | 314.1.1.2 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_2b | 0.53 | 47.0 | 3.66e-01 | 100.0% | 52.3% |
| 3681280 | 211.1.1.1 ↗ | a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase | 0.53 | 36.0 | 3.87e-01 | 73.5% | 80.0% |
| 4843435 | 211.1.1.0 ↗ | a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase | 0.53 | 32.0 | 3.70e-01 | 76.1% | 88.2% |
| 3203756 | 2002.1.1.121 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM,Mob_synth_C | 0.53 | 38.0 | 2.62e-01 | 74.3% | 34.7% |
| 4662124 | 2498.1.1.141 ↗ | mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M11 | 0.52 | 36.0 | 2.65e-01 | 71.7% | 30.3% |
| 5082591 | 314.1.1.0 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases | 0.52 | 45.0 | 3.26e-01 | 100.0% | 34.9% |
| 4164523 | 2002.1.1.121 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM,Mob_synth_C | 0.51 | 37.0 | 2.70e-01 | 74.3% | 41.6% |
| 3292655 | 2007.5.1.20 ↗ | a/b three-layered sandwiches › Flavodoxin-like › SGNH hydrolase › SGNH hydrolase › PC-Esterase,PMR5N | 0.51 | 45.0 | 3.12e-01 | 95.6% | 82.7% |
| 4310227 | 2002.1.1.121 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM,Mob_synth_C | 0.51 | 37.0 | 2.62e-01 | 74.3% | 41.5% |
| 3320881 | 2004.1.1.406 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › PC-Esterase | 0.50 | 43.0 | 3.66e-01 | 92.0% | 96.1% |
D2
medium
residues 58-171_285-311