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SR-VP_4-6_scaffold_141_4176636_prodigal-single.1__X__X__00246
Bact-VirSR-VP_4-6_scaffold_141_4176636_prodigal-single.1__X__X__00246
Identity
- Kingdom:
- phage
Quality
84.1
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
medium
residues 1-64
Domain cluster:
representative
D2
medium
residues 65-134
Domain cluster:
representative
CATH (33)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1q7sA00 | 3.40.1490.10 | Alpha Beta › 3-Layer(aba) Sandwich › Bit1 › Bit1 | 0.63 | 49.0 | 4.15e-01 | 84.3% | 87.2% |
| 3hm2A00 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.62 | 48.0 | 3.69e-01 | 87.1% | 91.2% |
| 1obbA00 | 3.90.1820.10 | Alpha Beta › Alpha-Beta Complex › LDH C-terminal domain-like › AglA-like glucosidase | 0.60 | 42.0 | 2.58e-01 | 74.3% | 53.8% |
| 3iabB01 | 3.30.110.20 | Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain | 0.60 | 46.0 | 4.13e-01 | 82.9% | 63.6% |
| 5h02A02 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.56 | 43.0 | 3.25e-01 | 84.3% | 48.9% |
| 4e6nB00 | 3.30.1610.20 | Alpha Beta › 2-Layer Sandwich › c-terminal autoproteolytic domain of nucleoporin nup98 › Hen1, N-terminal domain | 0.56 | 44.0 | 3.17e-01 | 87.1% | 73.9% |
| 3fefA00 | 3.90.1820.10 | Alpha Beta › Alpha-Beta Complex › LDH C-terminal domain-like › AglA-like glucosidase | 0.55 | 39.0 | 2.47e-01 | 77.1% | 78.3% |
| 3jwhA00 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.55 | 42.0 | 3.18e-01 | 87.1% | 51.8% |
| 3lp8A04 | 3.90.600.10 | Alpha Beta › Alpha-Beta Complex › Glycinamide Ribonucleotide Synthetase; Chain A, domain 4 › Phosphoribosylglycinamide synthetase, C-terminal domain | 0.55 | 44.0 | 4.00e-01 | 87.1% | 68.8% |
| 5v7qT00 | 3.30.70.330 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain | 0.54 | 44.0 | 3.96e-01 | 90.0% | 68.4% |
| 1bdfA01 | 3.30.1360.10 | Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit | 0.54 | 43.0 | 3.81e-01 | 88.6% | 64.2% |
| 3u6yA00 | 3.30.110.20 | Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain | 0.54 | 42.0 | 3.79e-01 | 85.7% | 69.7% |
| 1xtzA02 | 3.30.70.260 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain | 0.54 | 42.0 | 4.00e-01 | 88.6% | 77.4% |
| 3bf4A01 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.54 | 43.0 | 3.90e-01 | 90.0% | 68.7% |
| 6qdwt00 | 3.30.70.330 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain | 0.53 | 43.0 | 3.98e-01 | 90.0% | 75.3% |
| 1dfaA03 | 3.10.28.10 | Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases | 0.53 | 41.0 | 3.75e-01 | 87.1% | 63.2% |
| 1d2gA02 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.53 | 41.0 | 3.10e-01 | 87.1% | 51.1% |
| 4l3tA04 | 3.30.830.10 | Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like | 0.53 | 42.0 | 2.93e-01 | 92.9% | 34.0% |
| 7c51A01 | 3.30.70.2970 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Protein of unknown function (DUF541), domain 2 | 0.52 | 42.0 | 3.70e-01 | 91.4% | 99.1% |
| 1r6yA00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.52 | 42.0 | 3.78e-01 | 91.4% | 68.0% |
| 1tr0A00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.52 | 41.0 | 3.63e-01 | 87.1% | 65.1% |
| 1k8kD01 | 3.30.1460.20 | Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › | 0.52 | 42.0 | 3.37e-01 | 92.9% | 60.9% |
| 3qa8G01 | 1.10.510.10 | Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 | 0.51 | 41.0 | 2.82e-01 | 91.4% | 47.9% |
| 4mt1A06 | 3.30.70.1430 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain | 0.51 | 41.0 | 3.68e-01 | 90.0% | 65.3% |
| 4fprB00 | 3.30.70.2910 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.51 | 38.0 | 3.23e-01 | 82.9% | 93.0% |
| 3d3sA00 | 3.40.630.30 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) | 0.51 | 39.0 | 3.07e-01 | 84.3% | 58.5% |
| 3bn7A00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.51 | 43.0 | 3.89e-01 | 98.6% | 98.0% |
| 2p35A01 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.51 | 39.0 | 3.03e-01 | 87.1% | 49.4% |
| 1rjjA00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.51 | 41.0 | 3.62e-01 | 92.9% | 90.1% |
| 3bb5A00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.50 | 41.0 | 3.70e-01 | 92.9% | 65.0% |
| 1ne2B00 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.50 | 38.0 | 2.96e-01 | 87.1% | 78.7% |
| 2qyxA02 | 3.30.70.1360 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › mj0159-like | 0.50 | 39.0 | 3.40e-01 | 87.1% | 83.2% |
| 1o51A00 | 3.30.70.120 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.50 | 41.0 | 3.87e-01 | 95.7% | 94.4% |
ECOD (47)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3990988 | 2501.1.1.1 ↗ | a/b three-layered sandwiches › Peptidyl-tRNA hydrolase II › Peptidyl-tRNA hydrolase II › Peptidyl-tRNA hydrolase II › PTH2 | 0.68 | 53.0 | 4.31e-01 | 81.4% | 89.5% |
| 5083964 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.65 | 47.0 | 4.25e-01 | 78.6% | 73.0% |
| 5024288 | 305.1.1.2 ↗ | a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L_2 | 0.60 | 48.0 | 4.23e-01 | 88.6% | 62.9% |
| 5018724 | 872.3.1.0 ↗ | a+b two layers › Dodecin subunit-like › YbjQ-like › YbjQ-like | 0.60 | 46.0 | 4.19e-01 | 84.3% | 100.0% |
| 3265496 | 304.9.1.1 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 | 0.58 | 45.0 | 3.81e-01 | 87.1% | 50.0% |
| 3170813 | 304.9.1.1 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 | 0.58 | 45.0 | 3.94e-01 | 88.6% | 55.7% |
| 4261090 | 304.9.1.1 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 | 0.57 | 43.0 | 3.05e-01 | 85.7% | 25.1% |
| 4243267 | 304.9.1.1 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 | 0.56 | 43.0 | 3.06e-01 | 88.6% | 24.4% |
| 3401074 | 11.1.1.179 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 | 0.56 | 45.0 | 3.87e-01 | 88.6% | 64.3% |
| 4172769 | 304.9.1.68 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › PRE_C2HC | 0.56 | 43.0 | 4.14e-01 | 87.1% | 71.8% |
| 3869154 | 101.1.2.565 ↗ | alpha arrays › HTH › HTH › winged helix domain › WH_PARP12 | 0.56 | 41.0 | 3.99e-01 | 81.4% | 81.2% |
| 3406426 | 304.9.1.1 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 | 0.56 | 43.0 | 3.89e-01 | 87.1% | 60.0% |
| 332301 | 304.4.1.11 ↗ | a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › EthD | 0.55 | 44.0 | 3.90e-01 | 90.0% | 64.8% |
| 4656922 | 304.9.1.0 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD | 0.55 | 44.0 | 3.70e-01 | 90.0% | 50.8% |
| 3484106 | 304.8.1.0 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like | 0.55 | 43.0 | 3.96e-01 | 88.6% | 66.3% |
| 4928686 | 304.8.1.0 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like | 0.54 | 42.0 | 3.91e-01 | 85.7% | 71.1% |
| 3893192 | 327.11.2.26 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_N4BP1_1st | 0.54 | 41.0 | 4.04e-01 | 87.1% | 77.3% |
| 4936807 | 213.1.1.1 ↗ | a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 | 0.54 | 41.0 | 3.19e-01 | 84.3% | 36.3% |
| 4428345 | 304.9.1.1 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 | 0.54 | 42.0 | 3.07e-01 | 88.6% | 29.8% |
| 4444494 | 4956.1.1.0 ↗ | a+b two layers › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit | 0.54 | 43.0 | 3.91e-01 | 87.1% | 76.8% |
| 3488222 | 304.120.1.9 ↗ | a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › MBTP1_N | 0.54 | 41.0 | 3.85e-01 | 88.6% | 66.3% |
| 3336774 | 310.3.1.13 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › PF27677 | 0.54 | 42.0 | 3.77e-01 | 85.7% | 94.0% |
| 3998885 | 273.1.1.0 ↗ | a+b three layers › PR-1-like › PR-1-like › PR-1-like | 0.53 | 42.0 | 3.29e-01 | 90.0% | 73.5% |
| 3470372 | 304.9.1.1 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 | 0.53 | 41.0 | 3.66e-01 | 88.6% | 59.0% |
| 3786296 | 304.9.1.0 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD | 0.53 | 42.0 | 3.56e-01 | 88.6% | 51.7% |
| 3703177 | 304.9.1.0 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD | 0.53 | 43.0 | 3.58e-01 | 90.0% | 96.0% |
| 3577533 | 304.114.1.0 ↗ | a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain | 0.53 | 41.0 | 3.51e-01 | 87.1% | 50.8% |
| 5052024 | 304.4.1.0 ↗ | a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel | 0.53 | 41.0 | 3.91e-01 | 88.6% | 71.8% |
| 3288140 | 304.44.1.0 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 | 0.53 | 40.0 | 3.42e-01 | 84.3% | 54.2% |
| 3272671 | 11.2.1.1 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 | 0.52 | 41.0 | 3.44e-01 | 88.6% | 99.2% |
| 5175 | 304.4.1.4 ↗ | a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM | 0.52 | 42.0 | 3.78e-01 | 91.4% | 68.0% |
| 4671096 | 304.4.1.54 ↗ | a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › Amnionless | 0.52 | 42.0 | 3.47e-01 | 88.6% | 64.6% |
| 3682561 | 304.9.1.1 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 | 0.52 | 39.0 | 3.79e-01 | 85.7% | 72.5% |
| 3629452 | 101.1.2.98 ↗ | alpha arrays › HTH › HTH › winged helix domain › CDT1 | 0.52 | 37.0 | 2.90e-01 | 80.0% | 44.3% |
| 3759055 | 304.114.1.0 ↗ | a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain | 0.52 | 40.0 | 3.39e-01 | 85.7% | 48.8% |
| 4945381 | 304.3.1.0 ↗ | a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain | 0.52 | 39.0 | 3.72e-01 | 84.3% | 68.2% |
| 3225950 | 304.126.1.1 ↗ | a+b two layers › Alpha-beta plaits › ferredoxin-like domain in vacuolar ATP synthase subunit C › ferredoxin-like domain in vacuolar ATP synthase subunit C › V_ATPase_I | 0.52 | 40.0 | 3.41e-01 | 85.7% | 50.0% |
| 3349675 | 11.2.1.1 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 | 0.52 | 43.0 | 3.42e-01 | 91.4% | 95.0% |
| 3271185 | 304.12.1.5 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › MBTP1_N | 0.52 | 40.0 | 3.70e-01 | 87.1% | 74.7% |
| 3597235 | 304.4.1.0 ↗ | a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel | 0.51 | 43.0 | 3.30e-01 | 98.6% | 82.6% |
| 3648704 | 304.9.1.0 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD | 0.51 | 40.0 | 3.73e-01 | 90.0% | 66.7% |
| 2443887 | 11.1.1.130 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Inhibitor_I42 | 0.51 | 41.0 | 3.67e-01 | 90.0% | 72.4% |
| 4078912 | 213.1.1.1 ↗ | a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 | 0.51 | 37.0 | 2.97e-01 | 81.4% | 57.6% |
| 3721871 | 2003.1.5.73 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_16 | 0.51 | 38.0 | 2.85e-01 | 87.1% | 40.9% |
| 3835200 | 3556.1.1.0 ↗ | a+b two layers › Uncharacterized Protein Rru_A0810 › Uncharacterized Protein Rru_A0810 › Uncharacterized Protein Rru_A0810 | 0.50 | 44.0 | 3.64e-01 | 100.0% | 79.2% |
| 4554366 | 304.114.1.0 ↗ | a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain | 0.50 | 39.0 | 3.39e-01 | 87.1% | 53.9% |
| 4098438 | 304.9.1.0 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD | 0.50 | 40.0 | 3.58e-01 | 87.1% | 64.0% |