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SR-VP_4-6_scaffold_141_476970_prodigal-single.1__X__X__00375
Bact-VirSR-VP_4-6_scaffold_141_476970_prodigal-single.1__X__X__00375
Identity
- Kingdom:
- phage
Quality
74.2
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 2-65
Domain cluster:
representative
CATH (45)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 6m9yA00 | 3.30.1300.40 | Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › | 0.69 | 51.0 | 5.32e-01 | 92.2% | 89.5% |
| 2vugA03 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.68 | 52.0 | 4.46e-01 | 82.8% | 98.0% |
| 2zylA02 | 3.90.380.10 | Alpha Beta › Alpha-Beta Complex › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 | 0.67 | 57.0 | 4.02e-01 | 100.0% | 48.4% |
| 6gp1A00 | 3.30.1300.40 | Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › | 0.65 | 47.0 | 4.71e-01 | 85.9% | 78.5% |
| 1ul7A00 | 3.30.310.80 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 | 0.63 | 50.0 | 4.39e-01 | 96.9% | 56.9% |
| 2obdA01 | 3.15.20.10 | Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 2 › Bactericidal permeability-increasing protein; domain 2 | 0.62 | 54.0 | 3.58e-01 | 100.0% | 35.7% |
| 2nvmA00 | 3.30.310.110 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › XisI-like | 0.62 | 41.0 | 3.52e-01 | 70.3% | 42.3% |
| 2nlvA00 | 3.30.310.110 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › XisI-like | 0.61 | 42.0 | 3.53e-01 | 71.9% | 61.6% |
| 2zf3C00 | 2.50.20.30 | Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › | 0.59 | 44.0 | 3.21e-01 | 81.2% | 30.8% |
| 2kf2A00 | 3.30.530.20 | Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain | 0.59 | 51.0 | 3.82e-01 | 100.0% | 39.5% |
| 2p0wA02 | 3.40.630.30 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) | 0.58 | 50.0 | 4.03e-01 | 100.0% | 52.6% |
| 1wznA02 | 2.20.25.110 | Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases | 0.58 | 41.0 | 4.29e-01 | 81.2% | 89.3% |
| 6l4lA02 | 3.10.310.10 | Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 | 0.58 | 48.0 | 3.89e-01 | 98.4% | 68.4% |
| 4z9cB00 | 2.40.50.110 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.58 | 46.0 | 3.92e-01 | 92.2% | 70.4% |
| 4jgwA01 | 1.20.870.10 | Mainly Alpha › Up-down Bundle › Son of sevenless (SoS) protein; Chain S, domain 1 › Son of sevenless (SoS) protein Chain: S domain 1 | 0.57 | 40.0 | 3.11e-01 | 75.0% | 37.8% |
| 4ebrA00 | 3.30.1460.50 | Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › | 0.57 | 47.0 | 3.63e-01 | 96.9% | 74.5% |
| 2gtlO02 | 2.40.128.620 | Mainly Beta › Beta Barrel › Lipocalin › | 0.56 | 45.0 | 3.51e-01 | 95.3% | 57.1% |
| 1y8cA02 | 2.20.25.110 | Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases | 0.56 | 37.0 | 3.82e-01 | 81.2% | 73.3% |
| 3ijtB00 | 3.30.530.20 | Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain | 0.56 | 45.0 | 3.64e-01 | 96.9% | 82.5% |
| 2wuqB00 | 3.40.710.10 | Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily | 0.55 | 43.0 | 2.95e-01 | 92.2% | 95.8% |
| 3vskA03 | 3.40.710.10 | Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily | 0.55 | 45.0 | 2.86e-01 | 93.8% | 96.4% |
| 3bk5A00 | 2.50.20.10 | Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX | 0.55 | 45.0 | 3.22e-01 | 100.0% | 57.9% |
| 3ci0I00 | 3.30.1300.30 | Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › GSPII I/J protein-like | 0.55 | 39.0 | 3.63e-01 | 85.9% | 59.0% |
| 3zugB02 | 2.40.30.30 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Riboflavin kinase-like | 0.54 | 42.0 | 3.31e-01 | 85.9% | 42.3% |
| 3qz4A00 | 2.115.10.20 | Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 | 0.54 | 44.0 | 2.97e-01 | 98.4% | 49.7% |
| 3cjeA00 | 3.30.300.20 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain | 0.54 | 45.0 | 3.56e-01 | 100.0% | 86.7% |
| 4id2A00 | 2.40.128.510 | Mainly Beta › Beta Barrel › Lipocalin › Protein of unknown function DUF4738 | 0.54 | 45.0 | 3.55e-01 | 92.2% | 77.9% |
| 3hn3A02 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.54 | 36.0 | 3.19e-01 | 84.4% | 43.3% |
| 2iecD00 | 3.30.1300.20 | Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › 7,8-dihydroneopterin aldolase (MptD) | 0.53 | 37.0 | 3.17e-01 | 75.0% | 61.5% |
| 7oufB01 | 3.30.420.10 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H | 0.53 | 46.0 | 3.55e-01 | 98.4% | 91.3% |
| 1iz6A01 | 2.30.30.30 | Mainly Beta › Roll › SH3 type barrels. › | 0.53 | 39.0 | 3.92e-01 | 87.5% | 78.3% |
| 3bxoA02 | 2.20.130.10 | Mainly Beta › Single Sheet › S-adenosyl-L-methionine-dependent methyltransferases › CAC2371-like domains | 0.53 | 38.0 | 3.98e-01 | 92.2% | 88.1% |
| 4i14A02 | 3.40.50.10990 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › GTP cyclohydrolase II | 0.52 | 40.0 | 3.33e-01 | 87.5% | 68.3% |
| 2rs7A01 | 3.30.160.20 | Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › | 0.52 | 36.0 | 3.46e-01 | 71.9% | 77.0% |
| 3qwnD01 | 2.40.50.500 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › NigD-like N-terminal OB domain | 0.52 | 32.0 | 3.15e-01 | 73.4% | 52.9% |
| 1fuwA00 | 3.10.450.10 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › | 0.52 | 38.0 | 3.48e-01 | 82.8% | 90.1% |
| 2hv2A01 | 3.40.630.30 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) | 0.51 | 37.0 | 3.34e-01 | 79.7% | 60.0% |
| 4lgvD02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.51 | 43.0 | 2.85e-01 | 93.8% | 86.0% |
| 2imlA01 | 2.30.110.10 | Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A | 0.51 | 40.0 | 3.55e-01 | 96.9% | 83.2% |
| 2nwvA00 | 3.30.310.110 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › XisI-like | 0.51 | 42.0 | 3.60e-01 | 96.9% | 64.3% |
| 2qm4A01 | 2.170.210.10 | Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › DNA double-strand break repair and VJ recombination XRCC4, N-terminal | 0.51 | 43.0 | 3.44e-01 | 100.0% | 73.4% |
| 1fguB01 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.51 | 41.0 | 3.49e-01 | 89.1% | 65.7% |
| 4jf6A00 | 3.40.710.10 | Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily | 0.50 | 41.0 | 2.87e-01 | 95.3% | 98.7% |
| 3k44B00 | 3.30.2450.30 | Alpha Beta › 2-Layer Sandwich › Secreted effector protein pipB2 fold › | 0.50 | 41.0 | 3.32e-01 | 96.9% | 97.9% |
| 1xteA00 | 3.30.1520.10 | Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain | 0.50 | 35.0 | 2.97e-01 | 75.0% | 62.9% |
ECOD (51)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4886249 | 304.130.1.1 ↗ | a+b two layers › Alpha-beta plaits › Uncharacterized protein MK0293 N-terminal domain › Uncharacterized protein MK0293 N-terminal domain › Ni_insertion | 0.70 | 55.0 | 5.49e-01 | 85.9% | 100.0% |
| 4142339 | 4099.1.1.4 ↗ | a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › CENP-O | 0.68 | 48.0 | 3.72e-01 | 75.0% | 37.9% |
| 3266335 | 243.1.1.0 ↗ | a+b two layers › Cystatin-like › NTF2-like › NTF2-like | 0.67 | 46.0 | 4.18e-01 | 76.6% | 51.1% |
| 3639350 | 511.1.1.0 ↗ | beta sandwiches › Heat shock protein 70kD (HSP70), peptide-binding domain › Heat shock protein 70kD (HSP70), peptide-binding domain › Heat shock protein 70kD (HSP70), peptide-binding domain | 0.67 | 49.0 | 3.73e-01 | 76.6% | 71.0% |
| 3526482 | 331.3.1.9 ↗ | a+b two layers › TBP-like › Bet v1-like › Bet v1-like › AHSA1 | 0.64 | 55.0 | 4.76e-01 | 100.0% | 61.9% |
| 4371680 | 2484.1.1.41 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK | 0.64 | 56.0 | 3.98e-01 | 100.0% | 95.1% |
| 3214642 | 2484.1.1.50 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Dimer_Tnp_hAT | 0.63 | 48.0 | 2.91e-01 | 81.2% | 92.9% |
| 6661 | 4276.1.1.1 ↗ | a+b two layers › XisI-like › XisI-like › XisI-like › XisI | 0.62 | 41.0 | 3.52e-01 | 70.3% | 42.3% |
| 3625247 | 241.15.1.0 ↗ | a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain | 0.62 | 45.0 | 3.82e-01 | 78.1% | 60.9% |
| 4990980 | 243.3.1.0 ↗ | a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin | 0.60 | 50.0 | 4.56e-01 | 100.0% | 70.5% |
| 168173 | 4276.1.1.1 ↗ | a+b two layers › XisI-like › XisI-like › XisI-like › XisI | 0.60 | 41.0 | 3.51e-01 | 71.9% | 63.3% |
| 3992247 | 391.1.1.0 ↗ | few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module | 0.60 | 44.0 | 4.08e-01 | 79.7% | 87.1% |
| 4419139 | 244.4.1.2 ↗ | a+b two layers › FAD-linked reductases, C-terminal domain-like › Ni-Fe binding domain in nickel-iron hydrogenase large subunit › Ni-Fe binding domain in nickel-iron hydrogenase large subunit › NiFeSe_Hases | 0.60 | 41.0 | 3.19e-01 | 71.9% | 53.1% |
| 3216674 | 214.1.1.1 ↗ | a+b two layers › SH2 › SH2 › SH2 › SH2 | 0.60 | 40.0 | 3.37e-01 | 70.3% | 39.1% |
| 3639482 | 220.1.1.211 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF7612 | 0.60 | 45.0 | 3.58e-01 | 82.8% | 97.1% |
| 3736590 | 9.14.1.0 ↗ | beta barrels › Lipocalins/Streptavidin › Uncharacterized protein YLR301W › Uncharacterized protein YLR301W | 0.59 | 45.0 | 3.97e-01 | 100.0% | 55.0% |
| 3262671 | 207.1.1.0 ↗ | beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats | 0.59 | 47.0 | 2.70e-01 | 92.2% | 10.9% |
| 5048750 | 221.4.1.1 ↗ | a+b two layers › beta-Grasp › Nudix › Nudix › NUDIX | 0.59 | 48.0 | 3.38e-01 | 92.2% | 85.6% |
| 5032125 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.58 | 49.0 | 3.26e-01 | 96.9% | 23.8% |
| 4947567 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.57 | 50.0 | 3.05e-01 | 100.0% | 17.4% |
| 4932706 | 2004.1.1.198 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 | 0.57 | 50.0 | 2.95e-01 | 100.0% | 13.0% |
| 5069317 | 2004.1.1.198 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 | 0.57 | 50.0 | 3.04e-01 | 100.0% | 18.1% |
| 4375028 | 264.2.1.0 ↗ | beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain | 0.57 | 40.0 | 3.19e-01 | 73.4% | 40.8% |
| 5073891 | 331.3.1.0 ↗ | a+b two layers › TBP-like › Bet v1-like › Bet v1-like | 0.56 | 45.0 | 4.10e-01 | 98.4% | 65.0% |
| 5073876 | 2004.1.1.198 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 | 0.56 | 49.0 | 2.97e-01 | 100.0% | 17.2% |
| 3721174 | 719.1.1.0 ↗ | beta barrels › XRCC4, N-terminal domain-like › XRCC4, N-terminal domain › XRCC4, N-terminal domain | 0.56 | 49.0 | 3.84e-01 | 100.0% | 60.7% |
| 3970479 | 809.1.1.0 ↗ | a+b two layers › BLIP-like › beta-lactamase-inhibitor protein, BLIP › beta-lactamase-inhibitor protein, BLIP | 0.56 | 39.0 | 3.75e-01 | 85.9% | 64.0% |
| 3436743 | 5.1.3.67 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 | 0.56 | 46.0 | 3.05e-01 | 100.0% | 34.7% |
| 3593907 | 5.1.4.0 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed | 0.55 | 50.0 | 3.15e-01 | 96.9% | 95.9% |
| 3572103 | 220.1.1.74 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like › PIG-H | 0.55 | 45.0 | 3.65e-01 | 93.8% | 92.6% |
| 3651019 | 5.1.4.101 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › DUF1618 | 0.55 | 46.0 | 3.16e-01 | 100.0% | 58.2% |
| 3669786 | 4.8.1.0 ↗ | beta barrels › SH3 › Chromo domain-like › Chromo domain-like | 0.55 | 38.0 | 4.14e-01 | 89.1% | 96.0% |
| 4992847 | 243.3.1.0 ↗ | a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin | 0.55 | 39.0 | 3.77e-01 | 81.2% | 65.3% |
| 3421524 | 5.1.4.0 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed | 0.55 | 46.0 | 2.91e-01 | 100.0% | 21.8% |
| 3431397 | 5.1.3.118 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3 | 0.55 | 46.0 | 2.95e-01 | 100.0% | 31.3% |
| 4320633 | 2004.1.1.433 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_23 | 0.55 | 47.0 | 2.89e-01 | 100.0% | 17.8% |
| 4979416 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.54 | 46.0 | 2.81e-01 | 100.0% | 48.1% |
| 3439915 | 5.1.3.118 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3 | 0.54 | 47.0 | 3.07e-01 | 100.0% | 47.5% |
| 3744550 | 223.2.1.48 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like › FNIP_N, Longin_2 | 0.54 | 40.0 | 3.16e-01 | 85.9% | 78.2% |
| 3214480 | 2484.1.1.0 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like | 0.54 | 41.0 | 2.51e-01 | 87.5% | 82.2% |
| 3333267 | 330.1.1.5 ↗ | a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DND1_DSRM | 0.54 | 38.0 | 3.45e-01 | 78.1% | 60.0% |
| 4014828 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.54 | 39.0 | 4.13e-01 | 81.2% | 90.9% |
| 4942439 | 4252.1.1.0 ↗ | beta barrels › AttH-like › AttH-like › AttH-like | 0.53 | 43.0 | 3.46e-01 | 100.0% | 42.1% |
| 3245468 | 9.1.1.0 ↗ | beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins | 0.53 | 36.0 | 3.02e-01 | 81.2% | 37.5% |
| 4019656 | 220.1.1.211 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF7612 | 0.53 | 43.0 | 3.53e-01 | 96.9% | 97.8% |
| 3258452 | 330.1.1.1 ↗ | a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm | 0.52 | 44.0 | 3.56e-01 | 92.2% | 95.8% |
| 3339951 | 5.1.4.172 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_CAF1B_HIR1 | 0.52 | 43.0 | 2.68e-01 | 100.0% | 33.1% |
| 4964699 | 220.1.1.219 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like › CheF-arch | 0.51 | 36.0 | 3.09e-01 | 73.4% | 100.0% |
| 6662 | 4276.1.1.1 ↗ | a+b two layers › XisI-like › XisI-like › XisI-like › XisI | 0.51 | 42.0 | 3.60e-01 | 96.9% | 64.3% |
| 3573723 | 5.1.4.37 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Nup160 | 0.51 | 44.0 | 2.64e-01 | 100.0% | 24.0% |
| 5071733 | 4312.1.1.0 ↗ | a+b two layers › RelE-like › RelE-like › RelE-like | 0.50 | 40.0 | 3.62e-01 | 95.3% | 63.3% |