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putative_polh_gran

Euk-Vir

Esparto_virus

putative_polh_gran__YP_009551766__Esparto_virus__2072209

Identity

Accession:
YP_009551766 ↗
Protein ID:
putative_polh_gran
Kingdom:
euk

Quality

75.5 mean pLDDT

Taxonomy

Naldaviricetes› Lefavirales› Nudiviridae› Alphanudivirus› Esparto_virus

TaxID: 2072209

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 32-87_100-218
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5v07Z01 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.60 56.0 5.28e-01 100.0% 83.5%
1qrsA05 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.59 40.0 4.59e-01 92.6% 95.9%
4cujA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.58 31.0 3.47e-01 99.4% 65.4%
2g8lA03 3.40.50.10880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Uncharacterised protein PF01937, DUF89, domain 3 0.57 42.0 4.46e-01 98.9% 86.8%
4ccsA02 3.40.50.1400 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 39.0 4.57e-01 91.4% 100.0%
5ix8A02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.56 40.0 4.18e-01 82.3% 79.2%
3rotA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.56 40.0 4.45e-01 84.6% 93.4%
2wsiA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.56 39.0 3.32e-01 93.7% 43.9%
3cs3A02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.55 42.0 4.61e-01 92.0% 98.6%
1wu7A03 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.55 29.0 3.80e-01 97.1% 91.8%
4yleA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.55 39.0 4.26e-01 92.0% 88.4%
4rxtA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.55 41.0 4.25e-01 89.7% 84.8%
4kq9A02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.54 41.0 3.92e-01 89.1% 68.0%
3lzdA03 3.40.50.11860 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Diphthamide synthesis DPH1/DPH2 domain 3 0.54 28.0 3.58e-01 73.1% 85.3%
4nqrA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.54 43.0 4.57e-01 96.6% 95.5%
1m0wA04 3.40.50.1760 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glutathione synthase, substrate-binding domain superfamily, eukaryotic 0.54 38.0 4.28e-01 85.7% 96.9%
5t3yA00 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.54 31.0 3.60e-01 72.6% 78.4%
1dxyA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.53 30.0 3.34e-01 72.6% 69.2%
2wjwA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.53 37.0 3.84e-01 92.6% 76.1%
4pyrA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.52 35.0 4.16e-01 91.4% 100.0%
3gybA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.52 39.0 4.30e-01 81.7% 97.8%
2h3hB02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.52 40.0 4.18e-01 93.1% 88.5%
3lkbA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.52 41.0 4.26e-01 98.3% 88.6%
3om0A02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 41.0 4.30e-01 96.0% 93.8%
1efaA03 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 40.0 4.31e-01 91.4% 100.0%
5fbhA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 41.0 4.05e-01 96.6% 80.2%
1mdbA02 3.40.50.980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.50 38.0 3.82e-01 94.3% 77.6%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3743690 2006.1.4.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › XPG_N,XPG_I 0.75 57.0 5.71e-01 100.0% 77.1%
3283240 2006.1.4.4 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N 0.68 65.0 6.24e-01 100.0% 92.3%
4069073 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.66 40.0 5.01e-01 78.9% 100.0%
4997901 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.62 45.0 4.58e-01 94.3% 74.3%
5075678 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.61 44.0 4.10e-01 94.3% 60.0%
983549 2003.1.14.2 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Aspartate/ornithine carbamoyltransferase › OTCace_N 0.61 28.0 3.22e-01 76.6% 56.7%
5062889 2007.1.16.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Iron-sulphur enzyme Dph2 › Diphthamide_syn 0.60 35.0 4.41e-01 80.0% 99.0%
3781390 2006.1.4.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › XPG_N,XPG_I 0.60 56.0 5.20e-01 100.0% 80.9%
3282817 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.58 32.0 3.80e-01 98.9% 76.7%
5022764 7592.1.1.2 ↗ a/b three-layered sandwiches › CARF (CRISPR-associated Rossmann fold) domains › CARF (CRISPR-associated Rossmann fold) domains › CARF (CRISPR-associated Rossmann fold) domains › Cas_APE2256 0.58 53.0 5.18e-01 100.0% 100.0%
3614597 2005.1.1.14 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › PAPS_reduct 0.58 39.0 3.71e-01 93.7% 56.7%
3700098 2005.1.1.14 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › PAPS_reduct 0.58 39.0 3.69e-01 93.7% 55.6%
3502769 2006.1.1.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.55 42.0 4.57e-01 95.4% 97.9%
4017920 2007.1.14.10 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Chelatase-like › DUF6579 0.55 39.0 4.32e-01 94.9% 92.1%
4998327 2484.1.1.337 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RRXRR 0.54 39.0 4.36e-01 93.7% 92.9%
3382995 7524.1.1.1 ↗ a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › Aldedh 0.54 39.0 4.17e-01 89.1% 87.6%
3977672 2007.1.3.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like 0.54 37.0 3.85e-01 91.4% 74.8%
3480552 323.1.1.0 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.53 39.0 3.82e-01 96.0% 68.2%
1253012 2007.1.2.10 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › Peripla_BP_3 0.53 37.0 4.24e-01 92.0% 97.7%
3193540 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.52 39.0 4.00e-01 94.9% 81.8%
3988402 2007.1.2.10 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › Peripla_BP_3 0.52 40.0 4.36e-01 82.9% 100.0%
3214315 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.52 45.0 4.03e-01 93.1% 76.3%
3594637 323.1.1.0 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.51 39.0 3.41e-01 96.6% 51.1%
3394330 323.1.1.0 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.51 36.0 3.99e-01 89.1% 92.6%
5066379 7584.1.1.1 ↗ a/b three-layered sandwiches › Rossmann-like domain in Acetyl-CoA synthetase-like proteins › Rossmann-like domain in Acetyl-CoA synthetase-like proteins › Rossmann-like domain in Acetyl-CoA synthetase-like proteins › AMP-binding 0.51 39.0 3.91e-01 96.6% 78.9%
4481436 2007.1.2.10 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › Peripla_BP_3 0.51 40.0 4.32e-01 92.6% 98.0%
3469732 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.51 42.0 3.65e-01 88.0% 67.2%
3691104 2007.1.3.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like › Response_reg 0.50 31.0 3.46e-01 72.6% 78.5%
D2 medium residues 221-282_348-391
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6kd7A00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.57 50.0 3.56e-01 97.2% 56.3%
3kb9A00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.56 47.0 3.44e-01 97.2% 53.2%
4rocA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.53 43.0 4.42e-01 89.6% 91.3%
3akaA00 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.50 41.0 3.59e-01 89.6% 91.4%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4257966 5067.1.1.2 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › SecD_SecF 0.50 39.0 3.14e-01 84.0% 83.7%
D3 medium residues 283-347
PDB