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DNA_polymerase
Euk-VirCryptophlebia_peltastica_nucleopolyhedrovirus
DNA_polymerase__YP_010086932__Cryptophlebia_peltastica_nucleopolyhedrovirus__2304025
Identity
- Accession:
- YP_010086932 ↗
- Protein ID:
- DNA_polymerase
- Kingdom:
- euk
Quality
84.3
mean pLDDT
Taxonomy
Naldaviricetes›
Lefavirales›
Baculoviridae›
Alphabaculovirus›
Cryptophlebia_peltastica_nucleopolyhedrovirus
TaxID: 2304025
Cluster
View cluster (158 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 21-73_118-183
D2
medium
residues 197-262_385-424
Domain cluster:
rep: DNA-POL__YP_009249947__Mocis_latipes_granulovirus__2072024__D203-221_322-453
D3
medium
residues 263-384
Domain cluster:
rep: DNA-POL__YP_009249947__Mocis_latipes_granulovirus__2072024__D203-221_322-453
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF03104.26 best | DNA_pol_B_exo1 | 51.2 | 1.70e-13 | 91.8% | 41.3% |
D4
medium
residues 425-493
D5
medium
residues 494-537_560-649
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00136.27 best | DNA_pol_B | 32.5 | 6.10e-08 | 68.7% | 23.2% |
CATH (12)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3qf7A02 | 1.10.287.660 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.80 | 38.0 | 5.66e-01 | 84.3% | 100.0% |
| 3mq1A01 | 1.20.58.970 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.73 | 39.0 | 4.71e-01 | 89.6% | 77.2% |
| 1wpaA01 | 6.10.140.340 | Special › Helix non-globular › Helix Hairpins › | 0.72 | 39.0 | 4.50e-01 | 78.4% | 71.7% |
| 3l9fA02 | 6.10.140.1570 | Special › Helix non-globular › Helix Hairpins › | 0.71 | 36.0 | 4.60e-01 | 85.8% | 81.5% |
| 1gaxA05 | 1.10.287.380 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain | 0.69 | 37.0 | 5.02e-01 | 89.6% | 97.3% |
| 2yevA02 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.67 | 32.0 | 4.31e-01 | 80.6% | 83.8% |
| 7k18A01 | 1.20.120.350 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels. Chain C | 0.64 | 36.0 | 3.66e-01 | 93.3% | 54.5% |
| 4okvE00 | 6.10.140.1890 | Special › Helix non-globular › Helix Hairpins › | 0.62 | 31.0 | 4.30e-01 | 74.6% | 100.0% |
| 2l6hA00 | 1.20.120.330 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 | 0.60 | 43.0 | 4.12e-01 | 73.9% | 77.3% |
| 6adqG01 | 1.20.120.80 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle | 0.56 | 47.0 | 4.28e-01 | 89.6% | 86.0% |
| 3buxB01 | 1.20.930.20 | Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › Adaptor protein Cbl, N-terminal domain | 0.53 | 40.0 | 4.10e-01 | 77.6% | 92.2% |
| 4m70I00 | 1.20.5.4130 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.52 | 39.0 | 4.27e-01 | 76.9% | 95.4% |
ECOD (33)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4213046 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.81 | 39.0 | 5.68e-01 | 89.6% | 98.5% |
| 3651038 | 192.29.1.221 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › PF29520 | 0.75 | 40.0 | 4.10e-01 | 84.3% | 53.1% |
| 5047797 | 605.1.1.0 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase | 0.74 | 41.0 | 5.43e-01 | 84.3% | 98.7% |
| 4883924 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.74 | 41.0 | 5.22e-01 | 88.8% | 91.3% |
| 3669818 | 3922.1.1.284 ↗ | alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › PF29520 | 0.73 | 41.0 | 3.65e-01 | 84.3% | 39.5% |
| 3971539 | 605.1.1.0 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase | 0.72 | 40.0 | 5.20e-01 | 90.3% | 97.3% |
| 5056427 | 3843.1.1.38 ↗ | alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › T4SS_pilin | 0.72 | 40.0 | 4.37e-01 | 88.1% | 66.4% |
| 5082565 | 605.1.1.0 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase | 0.70 | 36.0 | 4.87e-01 | 82.1% | 95.7% |
| 4998819 | 2484.1.1.124 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 | 0.70 | 41.0 | 4.22e-01 | 91.8% | 60.0% |
| 4956224 | 304.48.1.3 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B | 0.69 | 60.0 | 4.83e-01 | 89.6% | 57.9% |
| 4999065 | 2484.1.1.124 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 | 0.69 | 41.0 | 3.93e-01 | 73.1% | 51.6% |
| 3588519 | 101.1.2.49 ↗ | alpha arrays › HTH › HTH › winged helix domain › PadR,Vir_act_alpha_C | 0.68 | 36.0 | 3.36e-01 | 88.1% | 40.6% |
| 4173456 | 2484.1.1.211 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605, Cas12f1-like_TNB | 0.68 | 43.0 | 3.78e-01 | 91.8% | 43.6% |
| 3484036 | 304.48.1.0 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like | 0.67 | 60.0 | 4.58e-01 | 92.5% | 57.8% |
| 3801150 | 304.48.1.3 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B | 0.67 | 61.0 | 4.58e-01 | 95.5% | 48.8% |
| None | — | 0.67 | 61.0 | 3.80e-01 | 95.5% | 21.9% | |
| 4959101 | 304.48.1.3 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B | 0.66 | 57.0 | 4.60e-01 | 91.0% | 58.0% |
| 4977369 | 304.48.1.3 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B | 0.66 | 59.0 | 4.68e-01 | 94.0% | 54.4% |
| 4970593 | 304.48.1.0 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like | 0.66 | 60.0 | 4.71e-01 | 94.8% | 54.8% |
| 3993981 | 304.48.1.3 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B | 0.65 | 57.0 | 4.68e-01 | 92.5% | 54.2% |
| 4942685 | 304.48.1.3 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B | 0.65 | 59.0 | 3.86e-01 | 94.8% | 27.6% |
| 5005094 | 2484.1.1.124 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 | 0.64 | 41.0 | 3.60e-01 | 95.5% | 44.1% |
| 3565062 | 310.2.1.0 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF | 0.63 | 36.0 | 3.60e-01 | 89.6% | 54.3% |
| 3505608 | 192.29.1.1 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB_dom | 0.62 | 36.0 | 4.52e-01 | 88.8% | 98.7% |
| 4982660 | 304.48.1.3 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B | 0.61 | 53.0 | 4.38e-01 | 94.8% | 55.3% |
| 5044377 | 304.48.1.3 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B | 0.61 | 53.0 | 4.25e-01 | 91.0% | 57.1% |
| 4317199 | 603.5.1.1 ↗ | alpha bundles › STAT-like › FlgN-like › FlgN-like › FlgN | 0.55 | 32.0 | 3.31e-01 | 89.6% | 60.0% |
| 4933826 | 5058.1.1.16 ↗ | alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1 | 0.54 | 32.0 | 3.37e-01 | 70.9% | 63.6% |
| 4997717 | 304.48.1.3 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B | 0.53 | 47.0 | 3.61e-01 | 97.8% | 44.8% |
| 5004597 | 5069.1.1.56 ↗ | alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › PF27518 | 0.53 | 38.0 | 3.21e-01 | 74.6% | 69.9% |
| 4003906 | 5057.1.1.0 ↗ | alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore | 0.51 | 37.0 | 3.79e-01 | 75.4% | 96.2% |
| 4967345 | 5069.1.1.15 ↗ | alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › Cytochrom_C_asm | 0.50 | 37.0 | 3.68e-01 | 75.4% | 94.2% |
| 4117026 | 5069.1.1.56 ↗ | alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › PF27518 | 0.50 | 36.0 | 3.05e-01 | 75.4% | 65.7% |
D6
medium
residues 538-559_650-714
Domain cluster:
rep: DNA_pol__YP_009011170__Mamestra_brassicae_multiple_nucleopolyhedrovirus__78219__D533-554_655-709_748-765
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00136.27 best | DNA_pol_B | 33.1 | 3.90e-08 | 72.4% | 13.5% |
D7
medium
residues 779-963_989-1021