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tRNA-Ile--lysidine_synthase
Euk-VirOnly_Syngen_Nebraska_virus_5
tRNA-Ile--lysidine_synthase__YP_009325805__Only_Syngen_Nebraska_virus_5__1917232
Identity
- Accession:
- YP_009325805 ↗
- Protein ID:
- tRNA-Ile--lysidine_synthase
- Kingdom:
- euk
Quality
72.0
mean pLDDT
Taxonomy
Bamfordvirae›
Nucleocytoviricota›
Megaviricetes›
Algavirales›
Phycodnaviridae›
Chlorovirus›
Only_Syngen_Nebraska_virus_5
TaxID: 1917232
Cluster
View cluster (9 members)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 3-120
D2
high
residues 183-369
Domain cluster:
rep: IMGVR_UViG_3300000928_002594-3300000928-OpTDRAFT_100169606__D4-180
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF01171.27 best | ATP_bind_3 | 97.4 | 1.20e-27 | 90.9% | 89.6% |
D3
high
residues 408-497
Domain cluster:
representative
CATH (17)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2r0cA02 | 3.30.9.10 | Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 | 0.66 | 36.0 | 3.09e-01 | 81.1% | 34.8% |
| 1cbyA00 | 3.40.198.10 | Alpha Beta › 3-Layer(aba) Sandwich › Delta-endotoxin CytB › Delta-endotoxin CytB-like | 0.66 | 50.0 | 3.77e-01 | 81.1% | 55.1% |
| 4me9B00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.60 | 46.0 | 3.69e-01 | 83.3% | 71.0% |
| 4a0tA03 | 2.60.320.30 | Mainly Beta › Sandwich › mini-chromosome maintenance (MCM) complex, domain 2 › | 0.58 | 44.0 | 4.42e-01 | 100.0% | 81.1% |
| 3obfA00 | 3.30.450.40 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain | 0.58 | 46.0 | 3.79e-01 | 88.9% | 64.8% |
| 2ix2A01 | 3.70.10.10 | Alpha Beta › Box › Proliferating Cell Nuclear Antigen › | 0.57 | 41.0 | 3.07e-01 | 73.3% | 45.2% |
| 1nrkA02 | 3.30.70.1400 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Aminomethyltransferase beta-barrel domains | 0.55 | 35.0 | 3.61e-01 | 81.1% | 67.8% |
| 1ud9A00 | 3.70.10.10 | Alpha Beta › Box › Proliferating Cell Nuclear Antigen › | 0.54 | 38.0 | 2.82e-01 | 72.2% | 42.6% |
| 2xpzA04 | 1.25.40.320 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Peptidase M1, leukotriene A4 hydrolase/aminopeptidase C-terminal domain | 0.54 | 42.0 | 3.44e-01 | 83.3% | 63.6% |
| 3zleA03 | 2.10.70.70 | Mainly Beta › Ribbon › Complement Module; domain 1 › | 0.54 | 23.0 | 3.20e-01 | 74.4% | 87.2% |
| 2v7sA00 | 3.30.2030.20 | Alpha Beta › 2-Layer Sandwich › TBP-like › | 0.53 | 43.0 | 3.58e-01 | 92.2% | 65.1% |
| 4s21B02 | 3.30.450.20 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain | 0.53 | 41.0 | 3.79e-01 | 84.4% | 67.2% |
| 2ewvA01 | 3.30.450.90 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › | 0.52 | 43.0 | 4.19e-01 | 90.0% | 96.1% |
| 2grgA01 | 3.40.1840.10 | Alpha Beta › 3-Layer(aba) Sandwich › Profilin-like › YNR034W-A-like | 0.51 | 38.0 | 3.99e-01 | 83.3% | 86.7% |
| 4xq7A01 | 3.30.460.10 | Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 | 0.51 | 40.0 | 3.43e-01 | 87.8% | 67.9% |
| 4mchA00 | 3.40.50.1580 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain | 0.51 | 42.0 | 3.19e-01 | 94.4% | 94.7% |
| 1plqA00 | 3.70.10.10 | Alpha Beta › Box › Proliferating Cell Nuclear Antigen › | 0.50 | 38.0 | 2.78e-01 | 80.0% | 43.4% |
ECOD (36)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4447483 | 3018.1.1.0 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like | 0.77 | 65.0 | 6.73e-01 | 98.9% | 97.6% |
| 4287928 | 3018.1.1.0 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like | 0.76 | 67.0 | 6.75e-01 | 95.6% | 98.9% |
| 4179274 | 3018.1.1.1 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS | 0.76 | 67.0 | 6.88e-01 | 100.0% | 100.0% |
| 3587194 | 3018.1.1.0 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like | 0.76 | 63.0 | 6.51e-01 | 88.9% | 97.6% |
| 4127538 | 3018.1.1.0 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like | 0.76 | 66.0 | 6.76e-01 | 100.0% | 100.0% |
| 4554582 | 3018.1.1.1 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS | 0.76 | 66.0 | 6.67e-01 | 95.6% | 98.9% |
| 4033296 | 3018.1.1.0 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like | 0.75 | 67.0 | 6.60e-01 | 98.9% | 97.9% |
| 4159154 | 3018.1.1.0 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like | 0.75 | 63.0 | 6.50e-01 | 98.9% | 97.6% |
| 4275132 | 3018.1.1.1 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS | 0.74 | 64.0 | 6.57e-01 | 98.9% | 98.8% |
| 4316271 | 3018.1.1.0 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like | 0.74 | 60.0 | 6.34e-01 | 95.6% | 98.8% |
| 4663253 | 3018.1.1.0 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like | 0.74 | 65.0 | 6.60e-01 | 100.0% | 98.9% |
| 4395529 | 3018.1.1.1 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS | 0.74 | 64.0 | 6.46e-01 | 98.9% | 94.4% |
| 4623762 | 3018.1.1.1 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS | 0.73 | 66.0 | 6.40e-01 | 100.0% | 94.0% |
| 4286824 | 3018.1.1.1 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS | 0.73 | 64.0 | 6.47e-01 | 97.8% | 94.4% |
| 4230026 | 3018.1.1.1 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS | 0.73 | 63.0 | 6.52e-01 | 98.9% | 100.0% |
| 4055950 | 3018.1.1.0 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like | 0.73 | 53.0 | 5.91e-01 | 77.8% | 98.6% |
| 4259516 | 3018.1.1.0 ↗ | a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like | 0.72 | 64.0 | 6.41e-01 | 98.9% | 96.7% |
| 4994897 | 223.2.1.0 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like | 0.63 | 52.0 | 4.49e-01 | 87.8% | 73.3% |
| 3238508 | 1.1.9.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › PUA domain | 0.56 | 34.0 | 3.71e-01 | 91.1% | 75.7% |
| 5024785 | 873.1.1.0 ↗ | a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain | 0.55 | 42.0 | 3.99e-01 | 82.2% | 96.4% |
| 4933185 | 873.1.1.13 ↗ | a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › ATC_hydrolase | 0.55 | 43.0 | 3.54e-01 | 83.3% | 73.3% |
| 3594390 | 331.2.1.0 ↗ | a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain | 0.55 | 41.0 | 3.91e-01 | 81.1% | 77.3% |
| 3389865 | 2004.1.1.17 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Myosin_head | 0.54 | 46.0 | 2.77e-01 | 100.0% | 62.2% |
| 3953435 | 223.1.1.0 ↗ | a+b three layers › Profilin-like › sensor domains › sensor domains | 0.54 | 46.0 | 3.78e-01 | 100.0% | 48.1% |
| 4944516 | 223.2.1.0 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like | 0.54 | 40.0 | 3.55e-01 | 80.0% | 57.0% |
| 4564280 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.52 | 43.0 | 3.39e-01 | 93.3% | 66.7% |
| 5046861 | 873.1.1.0 ↗ | a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain | 0.52 | 42.0 | 3.44e-01 | 86.7% | 85.9% |
| 4944328 | 223.2.1.0 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like | 0.52 | 40.0 | 3.52e-01 | 81.1% | 56.2% |
| 5071632 | 223.2.1.0 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like | 0.51 | 44.0 | 4.08e-01 | 100.0% | 89.2% |
| 5024072 | 223.2.1.0 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like | 0.51 | 38.0 | 3.60e-01 | 83.3% | 66.7% |
| 4944923 | 223.2.1.0 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like | 0.51 | 38.0 | 3.42e-01 | 82.2% | 56.2% |
| 5001141 | 223.2.1.0 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like | 0.51 | 44.0 | 4.26e-01 | 97.8% | 100.0% |
| 4985746 | 223.2.1.0 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like | 0.50 | 38.0 | 3.65e-01 | 82.2% | 94.3% |
| 3389592 | 223.2.1.5 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like › Robl_LC7 | 0.50 | 44.0 | 4.26e-01 | 100.0% | 99.0% |
| 5072409 | 873.1.1.1 ↗ | a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R | 0.50 | 38.0 | 3.21e-01 | 86.7% | 94.4% |
| 3229983 | 2484.1.1.200 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FTH | 0.50 | 41.0 | 3.17e-01 | 93.3% | 39.1% |