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RNA_ligase_2
Euk-VirAcanthamoeba_polyphaga_moumouvirus
RNA_ligase_2__YP_007354215__Acanthamoeba_polyphaga_moumouvirus__1269028
Identity
- Accession:
- YP_007354215 ↗
- Protein ID:
- RNA_ligase_2
- Kingdom:
- euk
Quality
76.1
mean pLDDT
Taxonomy
Bamfordvirae›
Nucleocytoviricota›
Megaviricetes›
Imitervirales›
Mimiviridae›
Moumouvirus›
Acanthamoeba_polyphaga_moumouvirus
TaxID: 1269028
Cluster
View cluster (10 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 43-176
Domain cluster:
rep: ATP-dependent_DNA_ligase__YP_009094561__Melbournevirus__1560514__D164-283
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF09414.16 best | RNA_ligase | 35.6 | 1.40e-08 | 100.0% | 65.5% |
CATH (27)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1s68A02 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.92 | 76.0 | 8.26e-01 | 100.0% | 100.0% |
| 1xdnA02 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.87 | 84.0 | 7.90e-01 | 100.0% | 99.4% |
| 1vs0A02 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.68 | 54.0 | 5.88e-01 | 100.0% | 100.0% |
| 6rarI01 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.66 | 56.0 | 4.92e-01 | 100.0% | 62.1% |
| 6rk7E03 | 3.30.300.10 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › | 0.63 | 40.0 | 4.01e-01 | 98.5% | 61.8% |
| 3l2pA03 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.62 | 53.0 | 5.54e-01 | 99.3% | 100.0% |
| 2hivA02 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.62 | 53.0 | 4.57e-01 | 100.0% | 59.7% |
| 2e8eA00 | 3.30.300.20 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain | 0.61 | 42.0 | 4.31e-01 | 82.1% | 72.0% |
| 3ty5A01 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.61 | 56.0 | 4.19e-01 | 100.0% | 41.7% |
| 1pqzA01 | 3.30.500.10 | Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like | 0.59 | 48.0 | 4.85e-01 | 100.0% | 84.7% |
| 1a9xA06 | 3.30.470.20 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain | 0.58 | 45.0 | 3.88e-01 | 80.6% | 53.7% |
| 4le5B03 | 3.30.300.10 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › | 0.58 | 39.0 | 3.93e-01 | 97.8% | 67.4% |
| 1gsoA03 | 3.30.470.20 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain | 0.57 | 44.0 | 4.41e-01 | 80.6% | 87.1% |
| 1lqlA02 | 3.30.300.20 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain | 0.57 | 40.0 | 4.42e-01 | 82.1% | 93.2% |
| 2nykA01 | 3.30.500.30 | Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › | 0.56 | 47.0 | 4.59e-01 | 100.0% | 81.8% |
| 3it8D01 | 3.30.500.10 | Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like | 0.55 | 51.0 | 4.59e-01 | 100.0% | 86.1% |
| 3lp8A03 | 3.30.470.20 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain | 0.55 | 43.0 | 4.26e-01 | 81.3% | 86.2% |
| 4g59C02 | 3.30.500.30 | Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › | 0.54 | 50.0 | 4.74e-01 | 99.3% | 84.8% |
| 2o5nA02 | 3.30.500.30 | Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › | 0.54 | 48.0 | 4.62e-01 | 97.8% | 85.4% |
| 2onfA01 | 3.30.300.20 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain | 0.54 | 38.0 | 3.86e-01 | 82.1% | 72.4% |
| 1lqvB00 | 3.30.500.10 | Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like | 0.53 | 47.0 | 4.38e-01 | 100.0% | 90.2% |
| 4l4qB01 | 3.30.300.280 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › S-adenosylmethionine synthetase, C-terminal domain | 0.52 | 40.0 | 3.97e-01 | 98.5% | 76.6% |
| 2vfrA04 | 3.30.70.2520 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.52 | 32.0 | 3.71e-01 | 97.0% | 88.3% |
| 4ffeX00 | 3.30.500.10 | Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like | 0.51 | 44.0 | 4.31e-01 | 100.0% | 86.0% |
| 2freA00 | 3.40.109.10 | Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase | 0.51 | 37.0 | 3.29e-01 | 76.1% | 52.3% |
| 2i0kA03 | 3.40.462.10 | Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › FAD-linked oxidases, C-terminal domain | 0.51 | 44.0 | 3.51e-01 | 94.8% | 90.8% |
| 5inhA04 | 3.40.570.10 | Alpha Beta › 3-Layer(aba) Sandwich › Extracellular Endonuclease; Chain A › Extracellular Endonuclease, subunit A | 0.50 | 44.0 | 3.51e-01 | 100.0% | 68.6% |
ECOD (22)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 193072 | 206.1.3.23 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase | 0.92 | 75.0 | 6.04e-01 | 100.0% | 48.1% |
| 3716751 | 206.1.3.23 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase | 0.90 | 68.0 | 6.40e-01 | 76.9% | 78.1% |
| 3594981 | 206.1.3.23 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase | 0.87 | 84.0 | 6.24e-01 | 100.0% | 51.5% |
| 1698226 | 206.1.3.23 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase | 0.82 | 65.0 | 5.50e-01 | 100.0% | 53.4% |
| 4021547 | 206.1.3.18 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › D123 | 0.64 | 45.0 | 3.44e-01 | 85.1% | 33.0% |
| 3372950 | 206.1.3.0 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp | 0.63 | 40.0 | 3.72e-01 | 83.6% | 50.9% |
| 3969252 | 324.1.1.1 ↗ | a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC | 0.59 | 37.0 | 3.76e-01 | 82.1% | 61.5% |
| 3964178 | 324.1.1.1 ↗ | a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC | 0.59 | 42.0 | 4.23e-01 | 82.8% | 72.6% |
| 5012398 | 324.1.1.1 ↗ | a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC | 0.59 | 40.0 | 4.04e-01 | 82.1% | 68.9% |
| 4998689 | 512.1.1.2 ↗ | a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd | 0.58 | 41.0 | 4.44e-01 | 92.5% | 87.3% |
| 4034614 | 324.1.1.1 ↗ | a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC | 0.58 | 41.0 | 4.10e-01 | 83.6% | 69.3% |
| 5071566 | 324.1.1.1 ↗ | a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC | 0.58 | 41.0 | 4.05e-01 | 82.8% | 68.6% |
| 3610536 | 206.1.3.0 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp | 0.57 | 42.0 | 3.24e-01 | 83.6% | 34.2% |
| 5871 | 324.1.1.1 ↗ | a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC | 0.56 | 40.0 | 3.99e-01 | 82.8% | 70.2% |
| 5044368 | 327.17.1.9 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › S-adenosylmethionine synthetase › S-adenosylmethionine synthetase › OsmC | 0.56 | 41.0 | 4.10e-01 | 83.6% | 72.9% |
| 4993588 | 206.1.3.17 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › DUF1297 | 0.55 | 43.0 | 3.34e-01 | 81.3% | 66.2% |
| 3734729 | 206.1.3.0 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp | 0.53 | 40.0 | 3.26e-01 | 81.3% | 42.4% |
| 5001274 | 512.1.1.0 ↗ | a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) | 0.52 | 42.0 | 4.27e-01 | 94.0% | 88.5% |
| 3739928 | 378.1.1.1 ↗ | few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases › Endonuclease_NS | 0.51 | 44.0 | 3.66e-01 | 97.0% | 84.6% |
| 5043019 | 512.1.1.2 ↗ | a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd | 0.51 | 44.0 | 3.79e-01 | 94.8% | 81.9% |
| 4971335 | 512.1.1.2 ↗ | a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd | 0.51 | 44.0 | 3.69e-01 | 94.8% | 81.7% |
| 4978641 | 512.1.1.1 ↗ | a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st | 0.51 | 44.0 | 3.74e-01 | 95.5% | 82.7% |
D2
medium
residues 15-42_177-218