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ORF1629_capsid_protein

Euk-Vir

Operophtera_brumata_nucleopolyhedrovirus

ORF1629_capsid_protein__YP_009552562__Operophtera_brumata_nucleopolyhedrovirus__1046267

Identity

Accession:
YP_009552562 ↗
Protein ID:
ORF1629_capsid_protein
Kingdom:
euk

Quality

64.7 mean pLDDT

Taxonomy

Naldaviricetes› Lefavirales› Baculoviridae› Alphabaculovirus› Operophtera_brumata_nucleopolyhedrovirus

TaxID: 1046267

Cluster

Singleton — not in a non-trivial cluster

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 medium residues 1-77
PDB
Domain cluster: rep: pp78_83__YP_009049828__Peridroma_alphabaculovirus__1346829__D4-72
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4nqfA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.59 43.0 3.59e-01 79.2% 58.6%
2znrA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.56 43.0 3.33e-01 83.1% 89.3%
3di1A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.56 43.0 3.02e-01 88.3% 83.1%
2hujA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.55 41.0 3.52e-01 80.5% 88.0%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3926196 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.54 41.0 3.98e-01 80.5% 80.0%
3926213 188.1.1.1 ↗ alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Hormone_recep 0.54 41.0 2.94e-01 85.7% 73.0%
3998525 196.1.1.1 ↗ alpha bundles › Regulator of G-protein signaling, RGS › Regulator of G-protein signaling, RGS › Regulator of G-protein signaling, RGS › RGS 0.53 39.0 3.04e-01 77.9% 56.1%
3929262 4967.1.1.0 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases 0.52 38.0 3.89e-01 80.5% 98.7%
3306783 7111.1.1.1 ↗ alpha bundles › Ubiquinol-cytochrome C chaperone, C-terminal domain › Ubiquinol-cytochrome C chaperone, C-terminal domain › Ubiquinol-cytochrome C chaperone, C-terminal domain › Ubiq_cyt_C_chap 0.51 44.0 3.25e-01 97.4% 97.1%
5062225 5059.1.1.1 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA 0.50 38.0 2.61e-01 81.8% 98.9%
3662968 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.50 32.0 3.48e-01 74.0% 83.3%
D2 medium residues 78-199
PDB
Domain cluster: representative
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4gpkB01 1.25.40.1000 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.79 42.0 4.68e-01 76.2% 64.6%
1elrA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.78 41.0 4.09e-01 74.6% 49.2%
2oo2A00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.77 48.0 6.00e-01 75.4% 100.0%
3edvA02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.75 57.0 4.90e-01 78.7% 92.3%
3r6nA02 1.20.58.1060 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 53.0 4.92e-01 75.4% 92.3%
5ctrA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.70 43.0 3.11e-01 80.3% 24.3%
4u04B01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.68 35.0 4.03e-01 78.7% 67.0%
2rfqC03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.68 51.0 4.55e-01 79.5% 87.4%
2jbrA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.67 51.0 4.42e-01 79.5% 88.6%
3kbtA00 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 47.0 3.55e-01 73.8% 65.5%
2rkkA01 1.25.40.270 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Vacuolar protein sorting-associated protein vta1 0.66 52.0 4.78e-01 83.6% 95.5%
6ljaA01 1.50.10.100 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › Chondroitin AC/alginate lyase 0.65 50.0 3.56e-01 81.1% 27.5%
2incB00 1.10.620.20 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A 0.64 54.0 3.98e-01 91.8% 68.0%
2yjkC00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.64 47.0 4.35e-01 77.0% 68.2%
2v5cA03 1.20.58.460 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hyaluronidase post-catalytic domain-like 0.61 43.0 4.24e-01 74.6% 67.7%
3fnbA01 1.20.1440.110 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase 0.60 49.0 5.08e-01 88.5% 97.4%
2jbyA00 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.60 38.0 3.79e-01 80.3% 61.4%
2b1eA02 1.20.1310.30 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › 0.59 45.0 4.23e-01 80.3% 79.5%
3mvuA00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.59 43.0 3.56e-01 77.0% 49.6%
4i43B02 3.30.43.40 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 2 › Pre-mRNA-processing-splicing factor 8, U5-snRNA-binding domain 0.59 46.0 4.73e-01 98.4% 87.7%
3bt5A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.58 43.0 4.07e-01 77.9% 72.8%
8ipqB01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.57 44.0 3.30e-01 80.3% 100.0%
2qf9A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.56 43.0 3.97e-01 81.1% 71.8%
5fzsA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.55 39.0 4.17e-01 83.6% 83.2%
1s35A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 47.0 4.96e-01 95.1% 100.0%
3fp3A01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.51 38.0 3.69e-01 78.7% 97.0%
ECOD (30)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3504429 109.4.1.202 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_16 0.79 37.0 3.87e-01 77.0% 49.1%
3711850 109.4.1.202 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_16 0.79 42.0 4.01e-01 86.1% 45.1%
3782809 603.1.1.17 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › SNARE 0.75 52.0 4.58e-01 71.3% 90.0%
3423804 109.4.1.202 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_16 0.75 41.0 4.32e-01 78.7% 59.1%
3337893 109.4.1.1444 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_14, TPR_16 0.75 41.0 3.12e-01 78.7% 24.5%
3927012 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.74 55.0 5.27e-01 77.0% 80.7%
3933806 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.73 51.0 5.02e-01 71.3% 90.0%
3932573 633.10.1.0 ↗ alpha bundles › Bromodomain-like › IVS-encoded protein-like › IVS-encoded protein-like 0.73 54.0 5.13e-01 76.2% 92.1%
4600952 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.71 42.0 4.40e-01 90.2% 63.6%
3618161 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.71 51.0 5.04e-01 74.6% 86.2%
3737997 4146.1.1.14 ↗ alpha bundles › YqgQ-like › YqgQ-like › YqgQ-like › Sec5 0.70 48.0 4.99e-01 70.5% 80.9%
3225319 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.69 51.0 5.24e-01 76.2% 90.4%
3819225 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.69 38.0 3.68e-01 78.7% 46.4%
3938416 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.67 52.0 4.20e-01 81.1% 90.9%
3301502 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.66 50.0 4.67e-01 78.7% 90.0%
1878829 109.4.1.939 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT_PRP39_C 0.66 41.0 3.02e-01 77.0% 24.0%
4034578 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.66 42.0 4.15e-01 78.7% 60.8%
3228563 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.64 48.0 4.64e-01 77.9% 90.4%
4378444 109.25.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › GPCR-autoproteolysis inducing domain subdomain A › GPCR-autoproteolysis inducing domain subdomain A › GAIN 0.64 43.0 4.40e-01 80.3% 70.0%
3438493 632.15.1.5 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) › Rx_N 0.64 37.0 3.52e-01 82.0% 47.6%
5057941 1075.5.1.0 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter 0.62 45.0 4.02e-01 74.6% 70.0%
4163282 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.60 47.0 4.05e-01 82.0% 59.5%
4427438 5085.1.1.2 ↗ a+b duplicates or obligate multimers › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › PF27489, PF29296 0.58 44.0 3.22e-01 80.3% 47.0%
5060868 140.1.1.9 ↗ alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon_3 0.57 45.0 4.06e-01 84.4% 79.4%
3216082 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.56 48.0 4.98e-01 96.7% 94.8%
3259375 621.1.1.0 ↗ alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain 0.55 40.0 3.93e-01 75.4% 85.9%
3353428 109.4.1.1273 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_3 0.54 40.0 3.73e-01 80.3% 64.1%
3489877 310.2.1.31 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › DUF4455 0.52 47.0 4.24e-01 95.9% 100.0%
4932476 1079.1.1.0 ↗ alpha complex topology › Transmembrane reductase CcdA › Transmembrane reductase CcdA › Transmembrane reductase CcdA 0.52 43.0 3.55e-01 86.9% 93.3%
3598168 3755.1.1.0 ↗ alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related 0.51 40.0 3.56e-01 80.3% 60.6%