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LacPavin_0818_WC40_scaffold_26136_prodigal-single.1__X__X__00216
Bact-VirLacPavin_0818_WC40_scaffold_26136_prodigal-single.1__X__X__00216
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 38-133
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF09414.16 best | RNA_ligase | 57.7 | 2.30e-15 | 100.0% | 59.7% |
CATH (20)
| 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 | 0.86 | 81.0 | 7.58e-01 | 100.0% | 92.9% |
| 1xdnA02 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.85 | 79.0 | 6.63e-01 | 100.0% | 93.5% |
| 2vugA03 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.80 | 74.0 | 7.25e-01 | 100.0% | 93.1% |
| 3qwuA02 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.79 | 73.0 | 5.83e-01 | 100.0% | 52.8% |
| 1vs0A02 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.69 | 64.0 | 6.11e-01 | 100.0% | 92.7% |
| 6rarI01 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.68 | 62.0 | 4.88e-01 | 100.0% | 55.4% |
| 3kreA02 | 3.30.470.20 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain | 0.66 | 52.0 | 4.62e-01 | 85.4% | 90.7% |
| 2olsA02 | 3.30.470.20 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain | 0.65 | 50.0 | 4.38e-01 | 82.3% | 95.1% |
| 3vnnA00 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.65 | 58.0 | 5.37e-01 | 100.0% | 83.1% |
| 1a0iA03 | 3.30.470.30 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme | 0.64 | 58.0 | 5.02e-01 | 100.0% | 89.9% |
| 1kblA06 | 3.30.470.20 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain | 0.63 | 49.0 | 4.96e-01 | 84.4% | 89.8% |
| 1kcgC00 | 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 | 0.61 | 54.0 | 4.53e-01 | 100.0% | 80.0% |
| 2pvpA02 | 3.30.470.20 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain | 0.61 | 48.0 | 4.19e-01 | 85.4% | 63.7% |
| 2qycA00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.60 | 36.0 | 3.54e-01 | 70.8% | 53.9% |
| 1hyrC01 | 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 | 53.0 | 4.32e-01 | 100.0% | 77.8% |
| 1tr0A00 | 3.30.70.100 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.55 | 35.0 | 3.44e-01 | 70.8% | 57.5% |
| 1t7vA01 | 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 | 48.0 | 4.01e-01 | 100.0% | 80.9% |
| 3omzA01 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.52 | 34.0 | 3.36e-01 | 97.9% | 61.2% |
| 1x6oA02 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.51 | 37.0 | 3.96e-01 | 84.4% | 94.9% |
| 2lxxA00 | 3.40.20.10 | Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin | 0.50 | 30.0 | 2.66e-01 | 70.8% | 36.8% |
ECOD (21)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 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 | 0.99 | 97.0 | 7.18e-01 | 100.0% | 47.1% |
| 3270508 | 206.1.3.23 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase | 0.94 | 90.0 | 6.50e-01 | 100.0% | 42.4% |
| 5007422 | 206.1.3.23 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase | 0.81 | 74.0 | 5.34e-01 | 100.0% | 37.6% |
| 5003826 | 206.1.3.23 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase | 0.81 | 74.0 | 5.33e-01 | 100.0% | 37.6% |
| 5012458 | 206.1.3.23 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase | 0.80 | 74.0 | 5.41e-01 | 100.0% | 39.6% |
| 4943522 | 206.1.3.23 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase | 0.80 | 75.0 | 5.58e-01 | 100.0% | 45.0% |
| 5017089 | 206.1.3.23 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase | 0.79 | 73.0 | 5.37e-01 | 100.0% | 40.8% |
| 5070559 | 206.1.3.23 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase | 0.78 | 71.0 | 5.22e-01 | 100.0% | 39.2% |
| 5077223 | 206.1.3.23 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase | 0.78 | 72.0 | 4.71e-01 | 100.0% | 27.2% |
| 3271939 | 206.1.3.24 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_lig_T4_1 | 0.74 | 67.0 | 4.72e-01 | 100.0% | 34.5% |
| 4881570 | 206.1.3.24 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_lig_T4_1 | 0.73 | 67.0 | 4.88e-01 | 100.0% | 38.3% |
| 3416233 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.64 | 43.0 | 4.26e-01 | 75.0% | 65.0% |
| 3395353 | 11.1.1.1154 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF29963 | 0.61 | 44.0 | 4.28e-01 | 75.0% | 70.5% |
| 3889649 | 11.1.1.607 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PCDH15_12th | 0.61 | 44.0 | 4.13e-01 | 76.0% | 63.3% |
| 3401008 | 11.1.1.1154 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF29963 | 0.61 | 43.0 | 4.31e-01 | 75.0% | 73.7% |
| 5061358 | 304.55.1.14 ↗ | a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Y2_Tnp | 0.61 | 39.0 | 3.77e-01 | 72.9% | 57.3% |
| 4589832 | 206.1.3.0 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp | 0.57 | 43.0 | 3.00e-01 | 83.3% | 23.4% |
| 3232363 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.56 | 44.0 | 3.46e-01 | 85.4% | 85.9% |
| 3416022 | 2007.1.2.30 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › IR75A_N | 0.51 | 40.0 | 3.20e-01 | 84.4% | 95.1% |
| 3762458 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.51 | 33.0 | 3.30e-01 | 77.1% | 63.0% |
| 3517799 | 2007.1.2.4 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › ANF_receptor | 0.50 | 40.0 | 3.12e-01 | 85.4% | 87.6% |
D2
high
residues 143-198
Domain cluster:
representative
CATH (4)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4hn3A00 | 3.10.570.10 | Alpha Beta › Roll › sex pheromone staph- cam373 precursor fold › sex pheromone staph- cam373 precursor domain | 0.54 | 44.0 | 2.84e-01 | 100.0% | 33.4% |
| 1skoB00 | 3.30.450.30 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic | 0.52 | 38.0 | 3.07e-01 | 83.9% | 38.8% |
| 3irpX01 | 2.60.40.1280 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.52 | 42.0 | 3.15e-01 | 92.9% | 36.8% |
| 1r17B01 | 2.60.40.1280 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.50 | 38.0 | 2.87e-01 | 87.5% | 32.7% |
ECOD (4)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3260661 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.56 | 40.0 | 3.49e-01 | 76.8% | 88.9% |
| 5049822 | 376.1.1.0 ↗ | few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box | 0.53 | 33.0 | 3.61e-01 | 71.4% | 77.8% |
| 5069567 | 243.6.1.0 ↗ | a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain | 0.52 | 34.0 | 3.20e-01 | 100.0% | 52.9% |
| 5008139 | 2007.1.7.1 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Rossmann-like domain in dehydroquinate synthase-like enzymes › Fe-ADH | 0.51 | 42.0 | 3.08e-01 | 100.0% | 57.8% |