←Back to structures
helicase-primase_primase_subunit
Euk-VirElephant_endotheliotropic_herpesvirus_5
helicase-primase_primase_subunit__YP_009052023__Elephant_endotheliotropic_herpesvirus_5__768738
Identity
- Accession:
- YP_009052023 ↗
- Protein ID:
- helicase-primase_primase_subunit
- Kingdom:
- euk
Quality
82.4
mean pLDDT
Taxonomy
Heunggongvirae›
Peploviricota›
Herviviricetes›
Herpesvirales›
Orthoherpesviridae›
Proboscivirus›
Elephant_endotheliotropic_herpesvirus_5
TaxID: 768738
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 834-966
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 | 60.5 | 1.60e-16 | 58.7% | 93.3% |
D2
medium
residues 1-42_74-142_156-201
D3
medium
residues 202-266
Domain cluster:
representative
CATH (5)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2lxeA01 | 1.10.8.850 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Histone-lysine N methyltransferase , C-terminal domain-like | 0.65 | 46.0 | 4.55e-01 | 100.0% | 71.0% |
| 2mgwA00 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.60 | 38.0 | 4.11e-01 | 100.0% | 78.8% |
| 7craA02 | 1.20.58.1480 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.54 | 40.0 | 3.67e-01 | 81.5% | 85.9% |
| 3kzxA02 | 1.10.150.730 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › | 0.54 | 42.0 | 4.33e-01 | 89.2% | 88.7% |
| 2cxiA03 | 3.30.56.10 | Alpha Beta › 2-Layer Sandwich › Phenylalanyl-tRNA Synthetase; Chain B, domain 1 › | 0.52 | 43.0 | 4.25e-01 | 96.9% | 88.6% |
ECOD (6)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4405867 | 109.4.1.171 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › U3snoRNP10 | 0.61 | 48.0 | 2.67e-01 | 87.7% | 9.6% |
| 3996112 | 601.7.1.21 ↗ | alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › NICE-3 | 0.60 | 50.0 | 4.26e-01 | 100.0% | 75.0% |
| 4438754 | 101.7.1.1 ↗ | alpha arrays › HTH › DEK-C › DEK-C › DEK_C | 0.60 | 35.0 | 3.72e-01 | 84.6% | 67.3% |
| 3450169 | 101.1.1.67 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_6 | 0.59 | 28.0 | 2.95e-01 | 86.2% | 48.3% |
| 3631692 | 101.1.1.176 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › DEK_C | 0.57 | 33.0 | 3.45e-01 | 84.6% | 61.7% |
| 137564 | 2006.1.1.18 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › HAD_2 | 0.50 | 41.0 | 2.91e-01 | 90.8% | 29.9% |
D4
medium
residues 267-318
Domain cluster:
rep: E70__YP_007016467__Murid_betaherpesvirus_8__1261657__D218-274
CATH (28)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1irxA05 | 1.10.10.350 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.74 | 52.0 | 4.32e-01 | 75.0% | 43.0% |
| 1uujA00 | 1.20.960.30 | Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › | 0.73 | 46.0 | 3.99e-01 | 75.0% | 43.4% |
| 3g3oA00 | 3.20.100.30 | Alpha Beta › Alpha-Beta Barrel › mRNA Triphosphatase Cet1; Chain A › VTC, catalytic tunnel domain | 0.69 | 55.0 | 3.45e-01 | 88.5% | 31.7% |
| 3d36B02 | 1.10.287.130 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain | 0.66 | 51.0 | 4.90e-01 | 84.6% | 73.8% |
| 2l35A00 | 1.10.287.770 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like | 0.65 | 51.0 | 4.85e-01 | 86.5% | 82.5% |
| 6m36O01 | 3.30.565.10 | Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain | 0.65 | 52.0 | 4.33e-01 | 90.4% | 49.0% |
| 2rdcA00 | 1.10.287.800 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 | 0.65 | 57.0 | 4.23e-01 | 100.0% | 58.6% |
| 2gsvA00 | 6.10.140.40 | Special › Helix non-globular › Helix Hairpins › | 0.64 | 50.0 | 4.68e-01 | 96.2% | 68.7% |
| 3favD00 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.64 | 53.0 | 4.80e-01 | 100.0% | 71.8% |
| 5nohA00 | 1.20.120.1350 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Pneumovirus matrix protein 2 (M2), zinc-binding domain | 0.62 | 46.0 | 3.72e-01 | 80.8% | 98.1% |
| 4l0rB00 | 1.20.58.90 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.61 | 45.0 | 4.14e-01 | 86.5% | 58.9% |
| 4jfcA02 | 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 | 0.61 | 49.0 | 4.86e-01 | 90.4% | 96.4% |
| 4abmD00 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.61 | 46.0 | 4.16e-01 | 86.5% | 61.0% |
| 5dukB00 | 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 | 0.60 | 40.0 | 3.80e-01 | 73.1% | 55.2% |
| 4mqbB00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.60 | 51.0 | 3.48e-01 | 100.0% | 27.1% |
| 1rsoA01 | 1.10.287.470 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.60 | 51.0 | 5.18e-01 | 100.0% | 100.0% |
| 3qxzA02 | 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 | 0.60 | 48.0 | 4.68e-01 | 96.2% | 96.7% |
| 3sllA02 | 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 | 0.58 | 45.0 | 4.37e-01 | 92.3% | 100.0% |
| 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 | 0.58 | 47.0 | 4.62e-01 | 96.2% | 96.6% |
| 1rajA01 | 4.10.880.10 | Few Secondary Structures › Irregular › Poliovirus 3D polymerase; domain 1 (Nucleotidyltransferase) › Poliovirus 3D polymerase Domain 1 (Nucleotidyltransferase) | 0.57 | 35.0 | 3.81e-01 | 76.9% | 75.0% |
| 1ma1A01 | 1.10.287.990 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain | 0.57 | 42.0 | 4.02e-01 | 80.8% | 75.0% |
| 1nv8B01 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.57 | 44.0 | 4.00e-01 | 90.4% | 63.4% |
| 3lssA01 | 1.10.287.40 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain | 0.54 | 40.0 | 3.26e-01 | 86.5% | 38.4% |
| 8b6jF01 | 1.10.287.20 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Ubiquinol-cytochrome C reductase hinge domain | 0.54 | 46.0 | 4.30e-01 | 100.0% | 91.0% |
| 6qumQ00 | 1.20.20.10 | Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C | 0.54 | 44.0 | 4.05e-01 | 100.0% | 75.7% |
| 3g80A00 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.54 | 44.0 | 4.11e-01 | 100.0% | 75.3% |
| 2gv9A05 | 1.10.287.690 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain | 0.54 | 45.0 | 4.37e-01 | 92.3% | 83.1% |
| 5c9gA02 | 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 | 0.53 | 44.0 | 4.31e-01 | 96.2% | 96.5% |
ECOD (22)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3715873 | 150.5.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like | 0.81 | 63.0 | 6.01e-01 | 90.4% | 73.3% |
| 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 | 0.81 | 72.0 | 5.68e-01 | 100.0% | 53.3% |
| 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 | 0.79 | 69.0 | 6.03e-01 | 100.0% | 87.5% |
| 3479118 | 605.8.1.0 ↗ | alpha duplicates or obligate multimers › ROP-like › BAS1536-like › BAS1536-like | 0.77 | 61.0 | 6.18e-01 | 94.2% | 92.0% |
| 3165232 | 1078.1.1.0 ↗ | extended segments › Bd-type quinol oxidase transmembrane helix subunit › Bd-type quinol oxidase transmembrane helix subunit › Bd-type quinol oxidase transmembrane helix subunit | 0.76 | 59.0 | 6.20e-01 | 90.4% | 100.0% |
| 5048048 | 4957.1.1.9 ↗ | a+b complex topology › helical domain in yeast RNA-polymerases › third helical domain in yeast RNA-polymerase II beta-prime subunit › third helical domain in yeast RNA-polymerase II beta-prime subunit › HAAS | 0.76 | 66.0 | 5.86e-01 | 98.1% | 69.3% |
| 4931319 | 2003.1.1.24 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › Shikimate_DH | 0.76 | 65.0 | 4.20e-01 | 100.0% | 26.4% |
| 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 | 63.0 | 5.69e-01 | 100.0% | 74.7% |
| 5019837 | 2003.1.1.24 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › Shikimate_DH | 0.72 | 61.0 | 3.94e-01 | 100.0% | 27.5% |
| 4079949 | 2003.1.1.0 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains | 0.72 | 60.0 | 3.90e-01 | 100.0% | 25.8% |
| 4097490 | 3755.1.1.23 ↗ | alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related › CemA | 0.70 | 59.0 | 4.71e-01 | 100.0% | 45.2% |
| 5081816 | 1075.5.1.8 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › Polysacc_synt_3 | 0.69 | 55.0 | 3.55e-01 | 94.2% | 18.8% |
| 4354962 | 3390.1.1.0 ↗ | extended segments › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT | 0.68 | 51.0 | 5.20e-01 | 80.8% | 86.0% |
| 3904232 | 101.1.2.37 ↗ | alpha arrays › HTH › HTH › winged helix domain › E2F_TDP | 0.68 | 57.0 | 4.70e-01 | 100.0% | 58.0% |
| 3879536 | 180.1.1.1 ↗ | alpha bundles › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › PAP2 | 0.65 | 54.0 | 3.37e-01 | 100.0% | 32.4% |
| 3193842 | 145.1.1.0 ↗ | alpha arrays › F-box domain › F-box domain › F-box domain | 0.64 | 55.0 | 4.23e-01 | 100.0% | 69.6% |
| 4588595 | 244.1.1.9 ↗ | a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C › GMC_oxred_C | 0.64 | 49.0 | 3.21e-01 | 88.5% | 19.1% |
| 4979163 | 5059.1.1.1 ↗ | alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA | 0.62 | 49.0 | 3.74e-01 | 100.0% | 36.8% |
| 3543713 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.61 | 50.0 | 4.21e-01 | 92.3% | 60.0% |
| 3252849 | 6055.1.1.0 ↗ | extended segments › Preprotein translocase subunit YajC › Preprotein translocase subunit YajC › Preprotein translocase subunit YajC | 0.57 | 47.0 | 4.85e-01 | 92.3% | 96.0% |
| 4025194 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.56 | 39.0 | 3.93e-01 | 75.0% | 76.4% |
| 5081048 | 2003.1.5.66 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 | 0.50 | 39.0 | 2.78e-01 | 98.1% | 24.7% |
D5
medium
residues 684-746_792-833
Domain cluster:
representative
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 6i1dA02 | 3.40.50.10890 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.52 | 37.0 | 3.12e-01 | 74.3% | 77.0% |