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DNA_helicase-primase_subunit_B
Euk-VirPhascolarctid_gammaherpesvirus_1
DNA_helicase-primase_subunit_B__YP_010087497__Phascolarctid_gammaherpesvirus_1__2249313
Identity
- Accession:
- YP_010087497 ↗
- Protein ID:
- DNA_helicase-primase_subunit_B
- Kingdom:
- euk
Quality
87.4
mean pLDDT
Taxonomy
Heunggongvirae›
Peploviricota›
Herviviricetes›
Herpesvirales›
Orthoherpesviridae›
Manticavirus›
Phascolarctid_gammaherpesvirus_1
TaxID: 2249313
Cluster
View cluster (58 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 726-848
Domain cluster:
rep: helicase-primase_primase_subunit__NP_944382__Psittacid_alphaherpesvirus_1__50294__D1138-1286
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF03121.21 best | Herpes_UL52 | 74.8 | 5.50e-21 | 60.2% | 88.0% |
D2
medium
residues 1-163
Domain cluster:
rep: helicase-primase_primase_subunit__YP_010085930__Wood_mouse_herpesvirus__432370__D12-162
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3besR03 | 6.10.140.1480 | Special › Helix non-globular › Helix Hairpins › | 0.59 | 19.0 | 3.00e-01 | 75.5% | 73.2% |
D3
medium
residues 164-234
D4
medium
residues 235-307
Domain cluster:
rep: E70__YP_007016467__Murid_betaherpesvirus_8__1261657__D218-274
CATH (32)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4mh6A00 | 1.10.287.1700 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.77 | 51.0 | 3.89e-01 | 71.2% | 31.4% |
| 3a8pA02 | 6.10.140.680 | Special › Helix non-globular › Helix Hairpins › | 0.75 | 50.0 | 4.24e-01 | 71.2% | 43.9% |
| 4hr1A00 | 1.20.1270.410 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › | 0.75 | 50.0 | 4.26e-01 | 71.2% | 43.2% |
| 2rdcA00 | 1.10.287.800 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 | 0.71 | 55.0 | 4.42e-01 | 80.8% | 51.9% |
| 3lssA01 | 1.10.287.40 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain | 0.71 | 47.0 | 4.05e-01 | 78.1% | 44.6% |
| 2hh7A00 | 1.20.58.1000 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer | 0.69 | 47.0 | 4.52e-01 | 71.2% | 64.7% |
| 2yf4F00 | 1.10.3420.10 | Mainly Alpha › Orthogonal Bundle › putative ntp pyrophosphohydrolase like fold › putative ntp pyrophosphohydrolase like domain | 0.67 | 47.0 | 3.73e-01 | 83.6% | 37.1% |
| 2yfaA02 | 1.20.1440.210 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › | 0.67 | 55.0 | 4.69e-01 | 89.0% | 98.3% |
| 3n1bA02 | 1.20.1280.130 | Mainly Alpha › Up-down Bundle › Monooxygenase › | 0.65 | 47.0 | 4.36e-01 | 80.8% | 60.0% |
| 2xokP00 | 1.20.20.10 | Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C | 0.64 | 52.0 | 5.19e-01 | 89.0% | 86.5% |
| 5dn6J00 | 1.20.20.10 | Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C | 0.64 | 49.0 | 4.97e-01 | 90.4% | 82.4% |
| 4h63H01 | 1.20.58.1710 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.64 | 49.0 | 5.03e-01 | 83.6% | 83.3% |
| 6qumQ00 | 1.20.20.10 | Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C | 0.64 | 49.0 | 4.95e-01 | 90.4% | 83.8% |
| 1cf7B00 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.62 | 48.0 | 4.66e-01 | 83.6% | 75.6% |
| 3r84B00 | 6.10.280.160 | Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator of RNA polymerase II transcription subunit 22 | 0.62 | 43.0 | 4.17e-01 | 71.2% | 68.8% |
| 3dfzA02 | 1.10.8.610 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › SirC, precorrin-2 dehydrogenase, C-terminal helical domain-like | 0.61 | 41.0 | 4.17e-01 | 86.3% | 68.9% |
| 2gsqA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.61 | 44.0 | 3.83e-01 | 83.6% | 50.9% |
| 3rx6A00 | 1.20.58.1090 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phage polarity suppression protein monomer | 0.61 | 52.0 | 3.83e-01 | 93.2% | 55.1% |
| 2wmmA01 | 1.20.5.420 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C | 0.61 | 35.0 | 4.18e-01 | 90.4% | 85.7% |
| 3bemB00 | 3.40.109.10 | Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase | 0.60 | 44.0 | 3.11e-01 | 75.3% | 26.3% |
| 3uumA00 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.60 | 44.0 | 3.73e-01 | 80.8% | 46.7% |
| 3fb2A01 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.60 | 48.0 | 4.19e-01 | 89.0% | 59.0% |
| 1u5pA01 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.60 | 44.0 | 3.83e-01 | 82.2% | 52.8% |
| 1m5iA00 | 1.10.287.450 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.59 | 45.0 | 4.04e-01 | 84.9% | 57.1% |
| 2kg7B00 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.59 | 48.0 | 4.39e-01 | 90.4% | 67.0% |
| 4jgiA01 | 1.10.1240.10 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain | 0.59 | 40.0 | 3.90e-01 | 75.3% | 63.7% |
| 3v9pB00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.59 | 46.0 | 3.39e-01 | 86.3% | 32.7% |
| 1p49A02 | 1.10.287.550 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.58 | 40.0 | 4.35e-01 | 74.0% | 88.1% |
| 3q1xA01 | 1.10.3130.10 | Mainly Alpha › Orthogonal Bundle › serine acetyltransferase, domain 1 › serine acetyltransferase, domain 1 | 0.56 | 43.0 | 3.60e-01 | 90.4% | 44.6% |
| 6lpnA03 | 3.30.70.2190 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.55 | 41.0 | 3.54e-01 | 79.5% | 70.2% |
| 4aflA00 | 6.10.140.1740 | Special › Helix non-globular › Helix Hairpins › | 0.54 | 46.0 | 4.12e-01 | 93.2% | 70.6% |
| 4fzwA02 | 1.10.12.10 | Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › Lyase 2-enoyl-coa Hydratase, Chain A, domain 2 | 0.52 | 38.0 | 4.23e-01 | 78.1% | 98.3% |
ECOD (32)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4587250 | 547.1.1.1 ↗ | alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer | 0.78 | 61.0 | 5.41e-01 | 86.3% | 59.0% |
| 4931319 | 2003.1.1.24 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › Shikimate_DH | 0.77 | 69.0 | 4.73e-01 | 100.0% | 32.0% |
| 4532729 | 547.1.1.1 ↗ | alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer | 0.77 | 68.0 | 6.09e-01 | 100.0% | 81.9% |
| 3404270 | 377.1.1.0 ↗ | few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like | 0.75 | 64.0 | 5.26e-01 | 93.2% | 53.1% |
| 3660998 | 4177.1.1.0 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like | 0.75 | 56.0 | 3.40e-01 | 79.5% | 45.8% |
| 4940986 | 5058.1.1.0 ↗ | alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region | 0.74 | 61.0 | 5.67e-01 | 93.2% | 70.5% |
| 4058838 | 547.1.1.1 ↗ | alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer | 0.74 | 60.0 | 5.98e-01 | 91.8% | 86.7% |
| 4444459 | 2003.1.1.0 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains | 0.74 | 66.0 | 4.45e-01 | 100.0% | 30.1% |
| 4541657 | 547.1.1.1 ↗ | alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer | 0.74 | 65.0 | 6.30e-01 | 97.3% | 100.0% |
| 3589830 | 5043.2.1.8 ↗ | extended segments › Sensor proteins transmembrane domains › NarQ transmembrane domain › NarQ transmembrane domain › DUF5592 | 0.73 | 59.0 | 6.03e-01 | 93.2% | 91.4% |
| 4951918 | 5058.1.1.0 ↗ | alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region | 0.72 | 57.0 | 5.21e-01 | 94.5% | 66.3% |
| 3660913 | 3826.1.1.0 ↗ | alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) | 0.71 | 57.0 | 5.40e-01 | 93.2% | 72.2% |
| 4996194 | 5058.1.1.0 ↗ | alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region | 0.71 | 56.0 | 5.27e-01 | 86.3% | 71.1% |
| 4107135 | 547.1.1.1 ↗ | alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer | 0.71 | 63.0 | 5.71e-01 | 100.0% | 78.0% |
| 3599499 | 3755.3.1.0 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin | 0.69 | 52.0 | 4.06e-01 | 83.6% | 38.7% |
| 3435097 | 4177.1.1.11 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › DUF632 | 0.69 | 53.0 | 3.54e-01 | 80.8% | 76.2% |
| 5005176 | 604.15.1.0 ↗ | alpha bundles › Spectrin repeat-like › Efb C-domain-like › Efb C-domain-like | 0.69 | 38.0 | 4.06e-01 | 87.7% | 61.5% |
| 2617307 | 1075.4.1.1 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane | 0.68 | 57.0 | 3.71e-01 | 93.2% | 22.0% |
| 3448091 | 603.1.1.0 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins | 0.65 | 49.0 | 4.16e-01 | 83.6% | 50.9% |
| 3393794 | 3922.1.1.211 ↗ | 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 › DRC7_C | 0.64 | 50.0 | 4.07e-01 | 83.6% | 77.0% |
| 3644932 | 5069.1.3.62 ↗ | alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › Mito_carr | 0.63 | 48.0 | 4.09e-01 | 86.3% | 48.8% |
| 3945531 | 605.1.1.4 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_3 | 0.61 | 44.0 | 4.48e-01 | 78.1% | 78.6% |
| 1879027 | 244.1.1.6 ↗ | a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C › Amino_oxidase | 0.61 | 48.0 | 3.01e-01 | 83.6% | 41.5% |
| 4980098 | 3834.1.1.0 ↗ | alpha bundles › TcA alpha pore-forming domain › TcA alpha pore-forming domain › TcA alpha pore-forming domain | 0.60 | 51.0 | 3.45e-01 | 91.8% | 76.2% |
| 4030508 | 7575.1.1.0 ↗ | a/b three-layered sandwiches › Caspase-like › Caspase-like › Caspase-like | 0.60 | 40.0 | 2.56e-01 | 76.7% | 12.6% |
| 4028552 | 3755.3.1.0 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin | 0.58 | 49.0 | 3.33e-01 | 90.4% | 50.6% |
| 3960219 | 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 | 0.58 | 48.0 | 4.76e-01 | 90.4% | 96.0% |
| 3276505 | 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 | 0.57 | 47.0 | 4.70e-01 | 89.0% | 98.7% |
| 3827397 | 5069.1.3.0 ↗ | alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits | 0.56 | 46.0 | 4.06e-01 | 95.9% | 62.6% |
| 3626481 | 603.1.1.105 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PF31021 | 0.56 | 46.0 | 4.00e-01 | 89.0% | 59.1% |
| 5039854 | 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 | 0.55 | 45.0 | 4.46e-01 | 91.8% | 85.3% |
| 3193842 | 145.1.1.0 ↗ | alpha arrays › F-box domain › F-box domain › F-box domain | 0.52 | 36.0 | 3.11e-01 | 89.0% | 43.2% |
D5
medium
residues 308-350_583-611_693-725
Domain cluster:
rep: helicase-primase_primase_subunit__YP_004940086__Aotine_betaherpesvirus_1__50290__D298-337_532-559_586-611_684-710_745-766
ECOD (2)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4014816 | 7579.1.1.0 ↗ | a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases | 0.55 | 25.0 | 2.07e-01 | 100.0% | 21.0% |
| 4021847 | 2011.1.1.8 ↗ | a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases › Peptidase_M28 | 0.50 | 28.0 | 2.05e-01 | 99.0% | 18.3% |
D6
medium
residues 351-501
D7
medium
residues 502-554
Domain cluster:
representative