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KR153873.1__AKG94502.1__X__00039
Bact-VirKR153873.1__AKG94502.1__X__00039
Identity
- Accession:
- KR153873 ↗
- Kingdom:
- phage
Quality
76.4
mean pLDDT
Taxonomy
Heunggongvirae›
Uroviricota›
Caudoviricetes›
Autographivirales›
Autotranscriptaviridae›
Piedvirus›
Delftia_phage_IME-DE1
TaxID: 1647385
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 4-102
D2
high
residues 148-324
Domain cluster:
rep: Hypothetical_protein_SPPV_50__NP_659626__Sheeppox_virus__10266__D1-82_143-236
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02739.23 best | 5_3_exonuc_N | 36.0 | 7.80e-09 | 94.9% | 82.9% |
CATH (17)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1xo1A02 | 3.40.50.1010 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease | 0.79 | 59.0 | 6.27e-01 | 94.9% | 86.2% |
| 3zdbA01 | 3.40.50.1010 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease | 0.78 | 66.0 | 7.06e-01 | 98.3% | 99.4% |
| 1tfrA01 | 3.40.50.1010 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease | 0.75 | 66.0 | 6.26e-01 | 96.0% | 79.1% |
| 5v07Z01 | 3.40.50.1010 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease | 0.70 | 65.0 | 6.11e-01 | 97.7% | 89.3% |
| 1a76A01 | 3.40.50.1010 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease | 0.68 | 62.0 | 5.83e-01 | 95.5% | 90.3% |
| 1dnpA01 | 3.40.50.620 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs | 0.64 | 46.0 | 5.24e-01 | 85.9% | 100.0% |
| 1cmwA01 | 3.40.50.1010 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease | 0.61 | 49.0 | 5.31e-01 | 91.5% | 100.0% |
| 2wq7A01 | 3.40.50.620 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs | 0.59 | 44.0 | 4.89e-01 | 87.0% | 98.5% |
| 1ltqA02 | 3.40.50.1000 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like | 0.57 | 43.0 | 4.76e-01 | 87.0% | 97.9% |
| 3op1A01 | 3.40.50.620 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs | 0.56 | 43.0 | 4.30e-01 | 88.7% | 76.8% |
| 2akoA00 | 3.40.1160.10 | Alpha Beta › 3-Layer(aba) Sandwich › Carbamate kinase › Acetylglutamate kinase-like | 0.53 | 46.0 | 4.14e-01 | 93.2% | 100.0% |
| 2mkyA00 | 3.30.70.1530 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hypothetical protein rpa1041 | 0.52 | 20.0 | 3.22e-01 | 85.9% | 100.0% |
| 3lcrB00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.52 | 38.0 | 3.27e-01 | 74.0% | 79.5% |
| 2yv4A00 | 3.40.50.11030 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Threonylcarbamoyl-AMP synthase, C-terminal domain | 0.51 | 31.0 | 3.75e-01 | 85.3% | 98.0% |
| 1dbqA01 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.51 | 36.0 | 4.03e-01 | 93.8% | 93.3% |
| 4eukA00 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.51 | 33.0 | 3.75e-01 | 92.1% | 85.3% |
| 2zosB01 | 3.40.50.1000 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like | 0.51 | 42.0 | 4.46e-01 | 89.3% | 99.4% |
ECOD (26)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4157264 | 2006.1.4.4 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N | 0.77 | 71.0 | 7.11e-01 | 96.6% | 98.9% |
| 2074443 | 2006.1.4.4 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N | 0.76 | 67.0 | 6.84e-01 | 92.7% | 94.3% |
| 4031817 | 2006.1.4.4 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N | 0.75 | 68.0 | 7.01e-01 | 96.6% | 98.8% |
| 3293941 | 2006.1.4.4 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N | 0.75 | 70.0 | 6.54e-01 | 97.2% | 92.4% |
| 3261281 | 2006.1.4.4 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N | 0.75 | 68.0 | 7.02e-01 | 96.6% | 100.0% |
| 4040391 | 2006.1.4.4 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N | 0.74 | 69.0 | 6.92e-01 | 98.3% | 99.4% |
| 3838776 | 2006.1.4.4 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N | 0.74 | 65.0 | 6.78e-01 | 98.9% | 99.4% |
| 4125023 | 2006.1.4.4 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N | 0.74 | 68.0 | 6.92e-01 | 98.3% | 100.0% |
| 3942272 | 2006.1.4.4 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N | 0.73 | 67.0 | 6.92e-01 | 96.0% | 100.0% |
| 3387660 | 2006.1.4.4 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N | 0.73 | 67.0 | 6.83e-01 | 95.5% | 100.0% |
| 3329169 | 2006.1.4.4 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N | 0.71 | 64.0 | 6.44e-01 | 96.6% | 95.4% |
| 4024047 | 2006.1.4.1 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › XPG_N,XPG_I | 0.69 | 63.0 | 5.70e-01 | 96.0% | 88.3% |
| 4932381 | 2006.1.4.13 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN_9 | 0.67 | 46.0 | 5.45e-01 | 85.9% | 100.0% |
| 5014193 | 2006.1.4.3 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › NYN | 0.66 | 47.0 | 4.89e-01 | 92.1% | 77.6% |
| 3609329 | 2006.1.4.0 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like | 0.64 | 59.0 | 5.57e-01 | 97.2% | 89.8% |
| 3587282 | 142.1.1.10 ↗ | alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › HTH_16 | 0.62 | 23.0 | 3.73e-01 | 89.3% | 88.6% |
| 4988571 | 2005.1.1.3 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp | 0.58 | 44.0 | 4.95e-01 | 88.7% | 100.0% |
| 4961978 | 2005.1.1.3 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp | 0.57 | 43.0 | 4.81e-01 | 85.9% | 100.0% |
| 4961825 | 2005.1.1.0 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains | 0.57 | 42.0 | 4.59e-01 | 87.6% | 91.3% |
| 4932935 | 2006.1.4.2 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN | 0.55 | 38.0 | 4.43e-01 | 85.3% | 100.0% |
| 3832178 | 2006.1.4.7 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › NYN_YacP | 0.54 | 46.0 | 4.53e-01 | 89.8% | 85.9% |
| 4407103 | 327.16.1.0 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system | 0.54 | 19.0 | 3.15e-01 | 88.1% | 91.7% |
| 4972761 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.53 | 39.0 | 3.56e-01 | 74.6% | 100.0% |
| 4646775 | 304.11.1.0 ↗ | a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase | 0.52 | 20.0 | 2.94e-01 | 88.7% | 78.7% |
| 4137642 | 327.16.1.0 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system | 0.51 | 20.0 | 3.01e-01 | 87.0% | 95.0% |
| 3970671 | 603.1.1.0 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins | 0.50 | 16.0 | 2.45e-01 | 86.4% | 65.3% |
D3
high
residues 333-425
Domain cluster:
representative
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1vwxS01 | 3.10.20.10 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › | 0.57 | 27.0 | 3.03e-01 | 84.9% | 54.9% |
| 7bvaA02 | 3.40.1190.10 | Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain | 0.52 | 41.0 | 3.11e-01 | 86.0% | 85.8% |
| 5uaiA01 | 3.40.50.170 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Formyl transferase, N-terminal domain | 0.50 | 34.0 | 2.67e-01 | 71.0% | 81.6% |
ECOD (3)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4938493 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.66 | 36.0 | 3.44e-01 | 88.2% | 45.7% |
| 3385833 | 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 | 0.51 | 43.0 | 3.03e-01 | 100.0% | 92.9% |
| 4153005 | 7571.1.1.1 ↗ | a/b three-layered sandwiches › Formyltransferase › Formyltransferase › Formyltransferase › Formyl_trans_N | 0.50 | 34.0 | 2.66e-01 | 71.0% | 79.5% |