←Back to structures
js4906-29-5_S40_scaffold_13_prodigal-single.1__X__X__00116
Bact-Virjs4906-29-5_S40_scaffold_13_prodigal-single.1__X__X__00116
Identity
- Kingdom:
- phage
Quality
76.8
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 159-288
Domain cluster:
rep: NODE_12_length_310542_cov_175.846709.1__X__X__00214__D161-282
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF18941.6 best | DUF5688 | 96.9 | 2.30e-27 | 94.6% | 39.0% |
CATH (16)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4durB01 | 3.50.4.10 | Alpha Beta › 3-Layer(bba) Sandwich › Hepatocyte Growth Factor › Hepatocyte Growth Factor | 0.63 | 34.0 | 4.11e-01 | 76.2% | 81.5% |
| 3va7A05 | 3.30.1360.40 | Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › | 0.62 | 34.0 | 3.81e-01 | 93.1% | 68.0% |
| 4r78A01 | 3.30.200.20 | Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 | 0.57 | 31.0 | 3.51e-01 | 93.8% | 67.7% |
| 3kxyJ00 | 3.30.1460.10 | Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › | 0.56 | 31.0 | 3.21e-01 | 95.4% | 53.5% |
| 5wm1A02 | 3.30.70.270 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain | 0.56 | 33.0 | 3.55e-01 | 76.2% | 67.9% |
| 2iruA02 | 3.30.70.3300 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.55 | 41.0 | 4.06e-01 | 76.9% | 94.2% |
| 8gk4C02 | 3.30.70.1430 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain | 0.55 | 32.0 | 3.67e-01 | 84.6% | 77.7% |
| 3qx3B03 | 3.30.1360.40 | Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › | 0.55 | 30.0 | 3.37e-01 | 94.6% | 67.0% |
| 4limA00 | 3.90.920.10 | Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain | 0.54 | 41.0 | 2.94e-01 | 79.2% | 72.4% |
| 3havA01 | 3.30.200.20 | Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 | 0.54 | 29.0 | 3.39e-01 | 93.1% | 73.0% |
| 2faoA01 | 3.90.920.10 | Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain | 0.54 | 41.0 | 3.21e-01 | 80.8% | 58.2% |
| 1zu0A02 | 3.90.76.10 | Alpha Beta › Alpha-Beta Complex › Dipeptide-binding Protein; domain 1 › Dipeptide-binding Protein; Domain 1 | 0.53 | 33.0 | 3.62e-01 | 90.0% | 75.7% |
| 2bvfA03 | 3.40.462.20 | Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › | 0.53 | 39.0 | 3.36e-01 | 76.9% | 78.1% |
| 2llzA01 | 3.30.70.2360 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.52 | 29.0 | 3.38e-01 | 93.8% | 75.6% |
| 5of3A00 | 3.90.920.10 | Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain | 0.52 | 41.0 | 3.07e-01 | 83.1% | 57.1% |
| 4jwoA01 | 3.40.190.10 | Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II | 0.50 | 42.0 | 4.11e-01 | 90.0% | 92.9% |
ECOD (29)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3796258 | 390.1.1.0 ↗ | few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like | 0.68 | 33.0 | 4.27e-01 | 73.1% | 80.0% |
| 2672260 | 304.28.1.1 ↗ | a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › ACR_tran | 0.66 | 33.0 | 3.72e-01 | 73.1% | 62.2% |
| 3502011 | 390.1.1.0 ↗ | few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like | 0.65 | 35.0 | 4.24e-01 | 73.8% | 80.0% |
| 3407050 | 390.1.1.1 ↗ | few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like › PAN_1 | 0.60 | 35.0 | 4.17e-01 | 72.3% | 85.9% |
| 3927761 | 2003.1.5.13 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth | 0.60 | 52.0 | 3.91e-01 | 94.6% | 61.8% |
| 4956062 | 241.1.1.0 ↗ | a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone | 0.58 | 31.0 | 3.18e-01 | 95.4% | 50.4% |
| 3998831 | 2003.1.5.0 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases | 0.57 | 47.0 | 3.87e-01 | 88.5% | 65.0% |
| 3593442 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.57 | 29.0 | 3.21e-01 | 77.7% | 57.1% |
| 3230630 | 2003.1.5.0 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases | 0.57 | 48.0 | 3.67e-01 | 91.5% | 83.6% |
| 4332439 | 304.28.1.2 ↗ | a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › Sec_GG | 0.56 | 30.0 | 3.52e-01 | 86.9% | 74.4% |
| 3506588 | 390.1.1.0 ↗ | few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like | 0.55 | 31.0 | 3.49e-01 | 73.8% | 71.7% |
| 4622889 | 329.1.1.1 ↗ | a+b two layers › Prokaryotic AspRS, insert domain › Prokaryotic AspRS, insert domain › Prokaryotic AspRS, insert domain › GAD | 0.54 | 33.0 | 3.32e-01 | 77.7% | 59.2% |
| 5020101 | 873.1.1.0 ↗ | a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain | 0.54 | 35.0 | 3.26e-01 | 99.2% | 50.0% |
| 4151784 | 304.6.1.3 ↗ | a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › BBE | 0.53 | 39.0 | 3.10e-01 | 76.9% | 65.8% |
| 2711606 | 862.1.1.5 ↗ | a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › LigD_Prim-Pol | 0.53 | 43.0 | 3.18e-01 | 86.2% | 58.6% |
| 4987159 | 862.1.1.5 ↗ | a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › LigD_Prim-Pol | 0.53 | 42.0 | 3.34e-01 | 83.8% | 68.1% |
| 4001140 | 1118.1.1.1 ↗ | a+b complex topology › Anchorless fibronectin/fibrinogen binding protein C-terminal domain › Anchorless fibronectin/fibrinogen binding protein C-terminal domain › Anchorless fibronectin/fibrinogen binding protein C-terminal domain › NFACT-R_1 | 0.53 | 43.0 | 4.40e-01 | 98.5% | 87.7% |
| 3959043 | 862.1.1.0 ↗ | a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain | 0.53 | 43.0 | 3.20e-01 | 86.2% | 60.0% |
| 4337484 | 304.41.1.1 ↗ | a+b two layers › Alpha-beta plaits › Glutamyl tRNA-reductase catalytic, N-terminal domain › Glutamyl tRNA-reductase catalytic, N-terminal domain › GlutR_N | 0.52 | 38.0 | 3.69e-01 | 76.9% | 90.7% |
| 4986859 | 862.1.1.5 ↗ | a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › LigD_Prim-Pol | 0.52 | 42.0 | 3.22e-01 | 86.2% | 65.8% |
| 4139791 | 304.41.1.1 ↗ | a+b two layers › Alpha-beta plaits › Glutamyl tRNA-reductase catalytic, N-terminal domain › Glutamyl tRNA-reductase catalytic, N-terminal domain › GlutR_N | 0.52 | 38.0 | 3.62e-01 | 76.9% | 89.4% |
| 3278096 | 862.1.1.5 ↗ | a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › LigD_Prim-Pol | 0.52 | 42.0 | 3.14e-01 | 86.2% | 60.9% |
| 4960009 | 862.1.1.5 ↗ | a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › LigD_Prim-Pol | 0.52 | 41.0 | 3.17e-01 | 83.8% | 67.7% |
| 5035888 | 304.19.1.1 ↗ | a+b two layers › Alpha-beta plaits › eIF-2-alpha, C-terminal domain › eIF-2-alpha, C-terminal domain › EIF_2_alpha | 0.51 | 26.0 | 3.06e-01 | 71.5% | 68.2% |
| 3284431 | 862.1.1.5 ↗ | a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › LigD_Prim-Pol | 0.51 | 41.0 | 3.13e-01 | 86.2% | 61.6% |
| 4249547 | 304.41.1.1 ↗ | a+b two layers › Alpha-beta plaits › Glutamyl tRNA-reductase catalytic, N-terminal domain › Glutamyl tRNA-reductase catalytic, N-terminal domain › GlutR_N | 0.51 | 38.0 | 3.78e-01 | 77.7% | 85.0% |
| 3455220 | 3012.1.1.4 ↗ | a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › Hydrolase_3 | 0.51 | 33.0 | 3.86e-01 | 86.9% | 95.6% |
| 4955202 | 7523.1.1.0 ↗ | a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II | 0.51 | 44.0 | 4.07e-01 | 95.4% | 97.0% |
| 4569682 | 304.41.1.1 ↗ | a+b two layers › Alpha-beta plaits › Glutamyl tRNA-reductase catalytic, N-terminal domain › Glutamyl tRNA-reductase catalytic, N-terminal domain › GlutR_N | 0.51 | 37.0 | 3.44e-01 | 76.9% | 90.0% |
D2
medium
residues 69-158
Domain cluster:
rep: js4906-29-5_S40_scaffold_9_prodigal-single.1__X__X__00040__D1-93
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF18941.6 best | DUF5688 | 70.2 | 3.10e-19 | 98.9% | 28.6% |
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1cukA01 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.58 | 31.0 | 3.45e-01 | 94.4% | 66.7% |
| 4p02A03 | 2.40.10.220 | Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains | 0.56 | 30.0 | 2.79e-01 | 74.4% | 37.7% |
| 1t3yA00 | 3.40.20.10 | Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin | 0.53 | 34.0 | 3.04e-01 | 100.0% | 45.0% |
| 2hqlA01 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.52 | 35.0 | 3.53e-01 | 93.3% | 68.1% |
| 5ewqC00 | 3.90.1300.10 | Alpha Beta › Alpha-Beta Complex › Amidase signature (AS) enzymes › Amidase signature (AS) domain | 0.52 | 39.0 | 2.49e-01 | 80.0% | 90.4% |
| 2zf3C00 | 2.50.20.30 | Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › | 0.51 | 30.0 | 2.43e-01 | 77.8% | 27.5% |