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HQ317388.1__AGG91244.1__SWVG_00002__00002
Bact-VirHQ317388.1__AGG91244.1__SWVG_00002__00002
Identity
- Accession:
- HQ317388 ↗
- Kingdom:
- phage
Quality
84.9
mean pLDDT
Taxonomy
Heunggongvirae›
Uroviricota›
Caudoviricetes›
Autographivirales›
Kajamvirus›
Synechococcus_phage_S-RIP1
TaxID: 754041
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 11-27_119-139_214-273
Domain cluster:
rep: KY065149.1__APD18159.1__X__00035__D3-48_122-171
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF17212.10 best | Tube | 31.4 | 2.50e-07 | 60.2% | 32.5% |
D2
high
residues 35-115
Domain cluster:
rep: NC_062735.1__YP_010355475.1__M1M13_gp086__00086__D641-721
CATH (37)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2as9A02 | 2.40.10.10 | Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases | 0.77 | 56.0 | 5.29e-01 | 75.3% | 89.4% |
| 1shyA02 | 2.40.10.10 | Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases | 0.75 | 55.0 | 5.06e-01 | 76.5% | 81.4% |
| 1k28D03 | 2.40.30.150 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Bacteriophage T4, Gp27, baseplate hub, domain 3 | 0.74 | 53.0 | 5.07e-01 | 75.3% | 95.8% |
| 1a7sA02 | 2.40.10.10 | Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases | 0.72 | 53.0 | 4.86e-01 | 77.8% | 80.0% |
| 2ey4D00 | 2.40.10.230 | Mainly Beta › Beta Barrel › Thrombin, subunit H › Probable tRNA pseudouridine synthase domain | 0.71 | 57.0 | 5.96e-01 | 86.4% | 100.0% |
| 2zu2A01 | 2.40.10.10 | Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases | 0.69 | 50.0 | 4.69e-01 | 75.3% | 76.5% |
| 3iuwA00 | 2.30.130.30 | Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › Hypothetical protein. | 0.68 | 48.0 | 4.91e-01 | 74.1% | 98.7% |
| 1vwxf00 | 2.40.10.190 | Mainly Beta › Beta Barrel › Thrombin, subunit H › translation elongation factor selb, chain A, domain 4 | 0.68 | 56.0 | 5.09e-01 | 91.4% | 96.3% |
| 1fx0B01 | 2.40.10.170 | Mainly Beta › Beta Barrel › Thrombin, subunit H › | 0.67 | 53.0 | 5.35e-01 | 85.2% | 98.7% |
| 1vq8B02 | 2.40.30.10 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors | 0.67 | 54.0 | 4.54e-01 | 88.9% | 87.6% |
| 2derA03 | 2.40.30.10 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors | 0.65 | 48.0 | 4.74e-01 | 79.0% | 81.6% |
| 1wosA04 | 2.40.30.110 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Aminomethyltransferase beta-barrel domains | 0.65 | 47.0 | 4.66e-01 | 76.5% | 73.3% |
| 1ivzA00 | 3.30.70.960 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › SEA domain | 0.64 | 44.0 | 3.82e-01 | 71.6% | 77.3% |
| 2v31A01 | 2.40.30.180 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Ubiquitin-activating enzyme E1, FCCH domain | 0.63 | 53.0 | 5.01e-01 | 93.8% | 92.8% |
| 3t05A02 | 2.40.33.10 | Mainly Beta › Beta Barrel › M1 Pyruvate Kinase; Domain 3 › PK beta-barrel domain-like | 0.62 | 49.0 | 4.63e-01 | 84.0% | 95.9% |
| 4divV01 | 2.40.30.200 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › | 0.62 | 42.0 | 3.61e-01 | 71.6% | 88.3% |
| 2gjvA00 | 3.30.2000.10 | Alpha Beta › 2-Layer Sandwich › STM4215-like › Phage tail protein-like | 0.59 | 40.0 | 3.46e-01 | 70.4% | 84.6% |
| 3x1lB03 | 2.60.40.4350 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.58 | 41.0 | 3.82e-01 | 74.1% | 82.9% |
| 4kx7A01 | 2.60.40.1730 | Mainly Beta › Sandwich › Immunoglobulin-like › tricorn interacting facor f3 domain | 0.58 | 45.0 | 3.37e-01 | 86.4% | 40.6% |
| 4fkeA01 | 2.60.40.1730 | Mainly Beta › Sandwich › Immunoglobulin-like › tricorn interacting facor f3 domain | 0.57 | 44.0 | 3.32e-01 | 85.2% | 33.6% |
| 1kkeA02 | 2.60.90.20 | Mainly Beta › Sandwich › Adenovirus Type 5 Fiber Protein (Receptor Binding Domain) › Virus attachment protein , globular domain | 0.57 | 44.0 | 3.74e-01 | 85.2% | 66.0% |
| 2nykA02 | 2.60.40.2530 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.54 | 39.0 | 3.85e-01 | 76.5% | 96.6% |
| 3mjgX03 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.54 | 39.0 | 3.70e-01 | 77.8% | 90.1% |
| 2xdhA00 | 2.60.40.680 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.53 | 39.0 | 3.26e-01 | 76.5% | 85.5% |
| 1g87A02 | 2.60.40.710 | Mainly Beta › Sandwich › Immunoglobulin-like › Endoglucanase-like | 0.53 | 41.0 | 3.41e-01 | 86.4% | 93.7% |
| 1fhoA00 | 2.30.29.30 | Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) | 0.53 | 41.0 | 3.70e-01 | 86.4% | 78.2% |
| 5jmfA02 | 2.70.98.70 | Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › | 0.52 | 39.0 | 2.78e-01 | 81.5% | 69.7% |
| 4b96A00 | 2.60.40.710 | Mainly Beta › Sandwich › Immunoglobulin-like › Endoglucanase-like | 0.52 | 40.0 | 3.38e-01 | 86.4% | 93.4% |
| 2pn5A10 | 2.60.40.690 | Mainly Beta › Sandwich › Immunoglobulin-like › Alpha-macroglobulin, receptor-binding domain | 0.51 | 38.0 | 3.19e-01 | 79.0% | 78.8% |
| 4xjcF00 | 2.70.40.10 | Mainly Beta › Distorted Sandwich › Deoxyuridine 5'-Triphosphate Nucleotidohydrolase; Chain A › Deoxyuridine triphosphatase (dUTPase) | 0.51 | 40.0 | 3.29e-01 | 90.1% | 68.0% |
| 7ehgC01 | 2.60.120.260 | Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like | 0.51 | 42.0 | 3.64e-01 | 92.6% | 60.5% |
| 4ojdH01 | 2.60.98.60 | Mainly Beta › Sandwich › Tick-borne Encephalitis virus Glycoprotein; domain 1 › Cell-cell fusogen EFF/AFF, domain 1 | 0.51 | 40.0 | 3.20e-01 | 85.2% | 99.4% |
| 4um8B02 | 2.60.40.1510 | Mainly Beta › Sandwich › Immunoglobulin-like › ntegrin, alpha v. Chain A, domain 3 | 0.51 | 37.0 | 3.14e-01 | 77.8% | 71.9% |
| 1ji6A02 | 2.60.120.260 | Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like | 0.51 | 42.0 | 3.43e-01 | 93.8% | 54.9% |
| 3hwjA00 | 2.60.120.820 | Mainly Beta › Sandwich › Jelly Rolls › PHR domain | 0.51 | 39.0 | 3.29e-01 | 86.4% | 53.7% |
| 4mtmA01 | 2.60.40.3940 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.50 | 40.0 | 3.82e-01 | 88.9% | 79.2% |
| 1o7dC02 | 2.60.40.1180 | Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II | 0.50 | 40.0 | 3.94e-01 | 88.9% | 82.0% |
ECOD (27)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5055336 | 1.1.8.1 ↗ | beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › GTP_EFTU_D3 | 0.70 | 52.0 | 5.02e-01 | 77.8% | 86.7% |
| 3597995 | 1.1.8.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain | 0.70 | 52.0 | 4.67e-01 | 77.8% | 69.1% |
| 4001416 | 1.1.7.20 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 | 0.70 | 57.0 | 5.69e-01 | 88.9% | 95.3% |
| 5017568 | 1.1.7.20 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 | 0.70 | 56.0 | 5.66e-01 | 86.4% | 100.0% |
| 4932394 | 1.1.7.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C | 0.69 | 58.0 | 5.40e-01 | 90.1% | 74.7% |
| 5010595 | 1.1.7.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C | 0.69 | 58.0 | 5.79e-01 | 92.6% | 98.8% |
| 4959432 | 1.1.7.9 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c | 0.69 | 56.0 | 5.69e-01 | 88.9% | 91.3% |
| 3180074 | 1.1.8.11 ↗ | beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › GTP-eEF1A_C | 0.68 | 51.0 | 4.85e-01 | 79.0% | 90.5% |
| 4944212 | 1.1.8.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain | 0.68 | 49.0 | 4.81e-01 | 76.5% | 83.0% |
| 4328622 | 1.1.7.9 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c | 0.68 | 55.0 | 4.91e-01 | 88.9% | 80.0% |
| 5022644 | 1.1.7.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C | 0.67 | 52.0 | 5.00e-01 | 84.0% | 83.2% |
| 4932663 | 1.1.8.11 ↗ | beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › GTP-eEF1A_C | 0.67 | 51.0 | 4.59e-01 | 80.2% | 88.2% |
| 4961202 | 1.1.8.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain | 0.67 | 50.0 | 4.87e-01 | 80.2% | 87.8% |
| 3699284 | 4081.1.1.5 ↗ | beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Peptidase_M1_N | 0.65 | 51.0 | 3.65e-01 | 85.2% | 40.0% |
| 3206575 | 1.1.8.1 ↗ | beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › GTP_EFTU_D3 | 0.65 | 51.0 | 4.57e-01 | 84.0% | 74.5% |
| 3389168 | 4081.1.1.5 ↗ | beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Peptidase_M1_N | 0.63 | 49.0 | 3.73e-01 | 86.4% | 44.4% |
| 1563513 | 1.1.8.10 ↗ | beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › Ski7_3rd | 0.62 | 46.0 | 4.23e-01 | 80.2% | 81.3% |
| 3238181 | 4081.1.1.5 ↗ | beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Peptidase_M1_N | 0.59 | 45.0 | 3.35e-01 | 85.2% | 31.2% |
| 5034162 | 10.20.1.0 ↗ | beta sandwiches › jelly-roll › Jelly-roll domain in cysteine protease › Jelly-roll domain in cysteine protease | 0.54 | 39.0 | 3.71e-01 | 79.0% | 98.0% |
| 3638266 | 11.1.1.554 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PhoD_2 | 0.53 | 39.0 | 3.70e-01 | 79.0% | 86.0% |
| 3834404 | 11.1.5.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f | 0.53 | 39.0 | 3.24e-01 | 77.8% | 90.0% |
| 3998175 | 11.1.5.114 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › Integrin_A_Ig_2 | 0.52 | 39.0 | 3.53e-01 | 80.2% | 87.0% |
| 4941877 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.52 | 36.0 | 3.20e-01 | 72.8% | 72.8% |
| 4405098 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.52 | 38.0 | 3.57e-01 | 77.8% | 93.0% |
| 3241496 | 11.1.5.94 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › Gpi16 | 0.51 | 37.0 | 3.03e-01 | 77.8% | 76.2% |
| 5036913 | 11.1.5.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f | 0.51 | 40.0 | 3.86e-01 | 84.0% | 75.6% |
| 5054720 | 11.1.5.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f | 0.51 | 38.0 | 3.48e-01 | 79.0% | 93.3% |
D3
high
residues 145-213
Domain cluster:
rep: KM199771.1__AIK68521.1__Lo5R7ANS_51__00051__D57-121
CATH (10)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3dclA02 | 2.40.10.170 | Mainly Beta › Beta Barrel › Thrombin, subunit H › | 0.59 | 51.0 | 4.70e-01 | 100.0% | 97.8% |
| 2eixA01 | 2.40.30.10 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors | 0.57 | 48.0 | 4.30e-01 | 100.0% | 93.4% |
| 3jxoA00 | 3.30.70.1450 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Regulator of K+ conductance, C-terminal domain | 0.55 | 44.0 | 4.17e-01 | 100.0% | 73.8% |
| 4zxwB01 | 3.30.559.10 | Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain | 0.55 | 40.0 | 3.08e-01 | 79.7% | 75.6% |
| 2di7A01 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.53 | 46.0 | 4.02e-01 | 100.0% | 86.9% |
| 4aeeA02 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.52 | 42.0 | 3.81e-01 | 91.3% | 71.1% |
| 2yr3A00 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.52 | 42.0 | 3.79e-01 | 91.3% | 75.8% |
| 2vbkA00 | 2.160.20.10 | Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like | 0.51 | 43.0 | 2.67e-01 | 100.0% | 15.7% |
| 1qmyA00 | 3.90.70.10 | Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases | 0.50 | 40.0 | 3.19e-01 | 100.0% | 40.4% |
| 2vobB02 | 3.90.1720.10 | Alpha Beta › Alpha-Beta Complex › endopeptidase fold (from Nostoc punctiforme) › endopeptidase domain like (from Nostoc punctiforme) | 0.50 | 42.0 | 3.10e-01 | 100.0% | 42.5% |
ECOD (16)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4873531 | 4275.1.1.6 ↗ | alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Tube | 0.90 | 72.0 | 5.19e-01 | 100.0% | 33.0% |
| 3062928 | 4275.1.1.0 ↗ | alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like | 0.86 | 72.0 | 5.04e-01 | 100.0% | 31.1% |
| 2722164 | 4275.1.1.6 ↗ | alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Tube | 0.86 | 72.0 | 5.05e-01 | 100.0% | 31.3% |
| 3090881 | 4275.1.1.0 ↗ | alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like | 0.86 | 73.0 | 5.14e-01 | 100.0% | 31.8% |
| 4843675 | 4275.1.1.6 ↗ | alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Tube | 0.80 | 64.0 | 4.97e-01 | 100.0% | 41.1% |
| 4829264 | 4275.1.1.6 ↗ | alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Tube | 0.77 | 69.0 | 5.05e-01 | 100.0% | 37.8% |
| 3391694 | 11.1.1.853 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF28399 | 0.57 | 47.0 | 4.22e-01 | 91.3% | 83.2% |
| 3530838 | 4182.1.1.7 ↗ | beta sandwiches › Agglutinin HPA-like › Agglutinin HPA-like › Agglutinin HPA-like › Mucin2_WxxW | 0.56 | 48.0 | 4.58e-01 | 100.0% | 92.9% |
| 3554031 | 11.1.1.297 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Integrin_A_Ig_2 | 0.56 | 49.0 | 3.96e-01 | 100.0% | 52.9% |
| 5036479 | 1.1.7.9 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c | 0.55 | 46.0 | 4.04e-01 | 98.6% | 72.7% |
| 4981783 | 4261.1.1.1 ↗ | a+b two layers › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA_C | 0.55 | 42.0 | 3.92e-01 | 100.0% | 66.3% |
| 5028923 | 4081.1.1.0 ↗ | beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related | 0.53 | 45.0 | 3.26e-01 | 100.0% | 35.0% |
| 3595194 | 3016.1.1.0 ↗ | a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases | 0.52 | 38.0 | 3.01e-01 | 81.2% | 90.9% |
| 3896079 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.52 | 41.0 | 4.06e-01 | 91.3% | 84.0% |
| 5035640 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.52 | 41.0 | 3.68e-01 | 91.3% | 81.9% |
| 3630474 | 929.1.1.6 ↗ | beta duplicates or obligate multimers › Resistin › Resistin › Resistin › DUF7808 | 0.51 | 43.0 | 3.61e-01 | 100.0% | 85.4% |