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helicase-primase_subunit

Euk-Vir

Meleagrid_alphaherpesvirus_1

helicase-primase_subunit__NP_073301__Meleagrid_alphaherpesvirus_1__37108

Identity

Accession:
NP_073301 ↗
Protein ID:
helicase-primase_subunit
Kingdom:
euk

Quality

81.5 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Mardivirus› Meleagrid_alphaherpesvirus_1

TaxID: 37108

Cluster

View cluster (61 members)

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 589-750
PDB
Domain cluster: rep: helicase-primase_subunit__YP_009342398__Spheniscid_alphaherpesvirus_1__2560777__D627-772
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5mlc900 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.68 43.0 5.21e-01 89.5% 96.3%
2oerA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.67 44.0 4.29e-01 100.0% 60.3%
2yfaB01 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.66 35.0 4.00e-01 88.9% 68.9%
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.65 41.0 4.87e-01 89.5% 93.6%
2b1eA04 1.20.1280.170 Mainly Alpha › Up-down Bundle › Monooxygenase › Exocyst complex component Exo70 0.64 44.0 4.97e-01 100.0% 90.6%
2wpvE00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.64 33.0 2.77e-01 97.5% 28.6%
3lwjA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.63 43.0 4.07e-01 100.0% 58.0%
3juiA00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.62 36.0 3.59e-01 100.0% 52.3%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.61 28.0 3.59e-01 95.1% 73.6%
3pjaJ01 1.20.58.190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 1 0.61 39.0 4.22e-01 99.4% 77.1%
8ek4A01 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.60 44.0 4.78e-01 89.5% 90.2%
3peuB00 1.25.40.510 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › GLE1-like 0.60 35.0 2.85e-01 95.1% 31.5%
3zheC01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.60 36.0 3.47e-01 99.4% 51.1%
3uumA00 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 38.0 4.29e-01 90.1% 84.4%
3ubkB02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.59 35.0 3.97e-01 96.3% 76.8%
4wzxA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.58 29.0 3.98e-01 88.3% 98.7%
5x56B00 1.20.58.810 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Photosystem II Pbs27 0.58 29.0 3.52e-01 92.6% 71.4%
2ibdA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 40.0 4.26e-01 100.0% 78.2%
3fhnA03 1.10.357.100 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Dsl1p vesicle tethering complex, Tip20p subunit, domain C 0.57 42.0 4.12e-01 100.0% 70.1%
2wa0A01 1.10.10.1200 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › MAGE homology domain, winged helix WH1 motif 0.57 28.0 3.41e-01 93.2% 71.3%
4g12A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.57 39.0 4.08e-01 100.0% 75.2%
1sxjE03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.57 30.0 3.73e-01 100.0% 83.5%
1iyhB02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.57 35.0 4.15e-01 98.1% 91.7%
1hbxA01 3.40.1810.10 Alpha Beta › 3-Layer(aba) Sandwich › SRF-like › Transcription factor, MADS-box 0.56 26.0 3.74e-01 97.5% 98.6%
2qvaA01 1.20.58.190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 1 0.56 39.0 4.28e-01 97.5% 88.4%
4cgrB00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 39.0 3.73e-01 100.0% 61.3%
4w8pA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.55 34.0 3.72e-01 90.1% 74.6%
2np9A01 1.20.58.1300 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 39.0 4.21e-01 97.5% 87.3%
2kmfA01 1.20.58.810 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Photosystem II Pbs27 0.55 30.0 3.60e-01 87.7% 81.4%
3axjB01 1.20.58.190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 1 0.55 40.0 4.12e-01 100.0% 79.4%
2dnxA00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 35.0 3.88e-01 91.4% 80.0%
3zheD01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.54 40.0 3.70e-01 98.1% 60.5%
1f2eA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.54 33.0 3.97e-01 100.0% 93.4%
3q9dB01 1.20.58.1050 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 28.0 3.63e-01 88.3% 93.3%
1zu2A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.51 31.0 3.15e-01 98.1% 60.8%
2wdqC00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.51 31.0 3.53e-01 97.5% 81.0%
1tqgA00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.51 30.0 3.58e-01 95.7% 88.6%
2b0hA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.50 33.0 3.70e-01 92.6% 84.4%
7p3rA01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.50 43.0 3.40e-01 91.4% 96.3%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4980095 310.2.1.0 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.70 45.0 5.48e-01 90.1% 99.0%
3603712 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.67 34.0 4.25e-01 85.8% 78.0%
3704321 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.66 33.0 4.32e-01 89.5% 88.2%
4026671 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.65 38.0 4.42e-01 88.9% 80.9%
3579520 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.63 35.0 4.48e-01 88.3% 95.6%
3929109 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.61 35.0 4.16e-01 89.5% 82.7%
3616669 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.61 40.0 4.65e-01 90.1% 93.9%
3704083 1075.1.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › ABC2_membrane 0.60 45.0 3.78e-01 100.0% 46.4%
3708344 604.1.1.160 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › DYH2-5-8_CC 0.60 38.0 4.18e-01 88.9% 77.7%
3239452 601.1.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › Vinculin 0.60 38.0 3.88e-01 87.7% 65.2%
3581026 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.59 40.0 4.29e-01 89.5% 79.3%
3719682 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.59 42.0 4.78e-01 98.8% 99.2%
3722101 109.4.1.356 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fungal_trans 0.58 38.0 2.70e-01 96.9% 21.9%
3452753 109.4.1.70 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › CID 0.58 34.0 3.35e-01 98.8% 52.0%
3222169 601.33.1.10 ↗ alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain › DUF19 0.58 31.0 3.17e-01 92.6% 52.2%
3812978 3914.1.1.5 ↗ alpha bundles › TMEM16 lipid scramblase transmembrane domain › TMEM16 lipid scramblase transmembrane domain › TMEM16 lipid scramblase transmembrane domain › RSN1_7TM+RSN1_TM 0.55 50.0 3.64e-01 100.0% 86.5%
3487229 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.54 37.0 4.23e-01 90.1% 98.3%
3878141 601.1.1.7 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › Talin_IBS2B 0.53 35.0 3.88e-01 93.8% 84.0%
3236445 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 29.0 2.93e-01 96.3% 48.8%
3707021 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.53 44.0 4.20e-01 88.3% 97.4%
3514283 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.53 37.0 3.84e-01 93.8% 75.5%
4038749 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.53 33.0 3.86e-01 93.2% 88.7%
3963031 109.37.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Anion channel SLAC1-related › Anion channel SLAC1-related › SLAC1 0.52 35.0 3.09e-01 95.1% 44.1%
3492836 3567.1.1.0 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.51 27.0 3.43e-01 84.0% 85.3%
D2 medium residues 1-148
PDB
Domain cluster: rep: helicase-primase_subunit__YP_004940263__Saimiriine_betaherpesvirus_4__1535247__D1-152
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4gs3A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.66 40.0 5.08e-01 95.3% 100.0%
3rd4B00 2.40.50.660 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.66 37.0 4.87e-01 94.6% 100.0%
3f6gA02 3.30.160.340 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.61 28.0 4.07e-01 87.2% 100.0%
1vqqA01 3.10.450.100 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › NTF2-like; domain 1 0.59 28.0 3.25e-01 85.8% 58.7%
3er7B00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 29.0 3.13e-01 83.1% 53.7%
1ue6D00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.58 38.0 4.43e-01 96.6% 94.2%
2vl6A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 38.0 4.29e-01 92.6% 88.4%
5odnC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 38.0 4.52e-01 95.3% 99.0%
3hx8A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.57 29.0 3.17e-01 82.4% 55.5%
2jq5A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 26.0 2.85e-01 85.1% 48.4%
3u4vA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.55 41.0 4.64e-01 96.6% 99.1%
3nv0B00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 29.0 3.00e-01 90.5% 55.1%
1of5B00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 30.0 3.28e-01 89.9% 64.8%
1wznA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.53 22.0 3.29e-01 75.7% 98.2%
3bxoA02 2.20.130.10 Mainly Beta › Single Sheet › S-adenosyl-L-methionine-dependent methyltransferases › CAC2371-like domains 0.51 21.0 3.05e-01 75.7% 86.4%
3f14A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.50 27.0 3.10e-01 88.5% 69.6%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4982481 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.67 39.0 4.75e-01 91.2% 89.5%
152653 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.66 40.0 5.08e-01 95.3% 100.0%
3941717 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.65 29.0 3.66e-01 83.8% 69.3%
3250428 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.64 37.0 3.76e-01 91.9% 57.2%
3589048 243.1.1.7 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › MecA_N 0.61 30.0 3.14e-01 87.8% 48.6%
4593266 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.60 30.0 4.03e-01 90.5% 92.0%
3965228 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.60 38.0 4.65e-01 93.9% 98.9%
3950757 243.1.1.7 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › MecA_N 0.60 29.0 3.26e-01 87.2% 57.4%
3289334 2.2.1.0 ↗ beta barrels › OB-fold › Bacterial enterotoxins › Bacterial enterotoxins 0.60 40.0 3.44e-01 95.3% 43.0%
4957055 708.1.1.0 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain 0.59 28.0 3.82e-01 88.5% 88.0%
3252847 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.59 35.0 4.27e-01 91.2% 97.6%
6400 243.1.1.18 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › SnoaL_2 0.59 28.0 3.12e-01 81.1% 53.4%
3719166 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.58 43.0 4.65e-01 95.9% 91.2%
3238606 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.58 34.0 3.77e-01 88.5% 72.2%
2541776 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.57 38.0 4.32e-01 97.3% 91.7%
3504070 243.1.1.13 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › CaMKII_AD 0.56 29.0 3.00e-01 88.5% 50.3%
3217155 243.1.1.97 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › DUF5382_N 0.56 31.0 3.09e-01 91.9% 50.7%
5032856 5.1.2.7 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › Glyco_hydro_130 0.55 42.0 3.16e-01 80.4% 89.6%
3733248 243.1.1.0 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.54 31.0 3.07e-01 89.9% 50.6%
3732444 243.1.1.0 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.52 28.0 2.91e-01 82.4% 51.0%
3281268 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.52 32.0 3.63e-01 93.9% 82.9%
3247589 243.1.1.0 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.52 30.0 3.16e-01 89.2% 62.4%
3223708 243.1.1.0 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.51 29.0 3.20e-01 88.5% 67.5%
5018317 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 31.0 3.74e-01 89.9% 91.0%
D3 medium residues 149-230
PDB
Domain cluster: rep: helicase-primase_subunit__YP_001033936__Gallid_alphaherpesvirus_2__10390__D159-238
D4 medium residues 231-350
PDB
Domain cluster: rep: ORF40__YP_009173917__Felis_catus_gammaherpesvirus_1__1452540__D204-289
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF03324.21 best Herpes_HEPA 81.4 7.20e-23 78.3% 94.5%
D5 medium residues 401-418_479-531_555-588
PDB
Domain cluster: rep: NC_004735.1__NP_835679.1__Rm378p092__00092__D1-33_185-289
D6 medium residues 419-478_532-554
PDB
Domain cluster: rep: helicase-primase_subunit__YP_009352912__Columbid_alphaherpesvirus_1__93386__D444-518_574-590