←Back to structures

viral_capsid_associated_protein

Euk-Vir

Condylorrhiza_vestigialis_MNPV

viral_capsid_associated_protein__YP_009118530__Condylorrhiza_vestigialis_MNPV__1592576

Identity

Accession:
YP_009118530 ↗
Protein ID:
viral_capsid_associated_protein
Kingdom:
euk

Quality

62.7 mean pLDDT

Taxonomy

Naldaviricetes› Lefavirales› Baculoviridae› Alphabaculovirus› Condylorrhiza_vestigialis_mutiple_nucleopolyhedrovirus

TaxID: 1592576

Cluster

View cluster (6 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 206-280
PDB
Domain cluster: rep: vp80__YP_009666567__Oxyplax_ochracea_nucleopolyhedrovirus__2083176__D336-408
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2lcqA01 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.76 45.0 3.76e-01 72.0% 35.8%
2bx2L02 3.40.1260.20 Alpha Beta › 3-Layer(aba) Sandwich › Hypothetical Protein Ychn; Chain: A, › Ribonuclease E, catalytic domain 0.60 43.0 3.82e-01 76.0% 55.5%
3ihjA02 1.10.287.1970 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 31.0 3.89e-01 81.3% 100.0%
3sylA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 47.0 3.54e-01 94.7% 79.9%
1jztA00 3.40.50.10260 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › YjeF N-terminal domain 0.56 46.0 3.29e-01 93.3% 37.4%
4hu4A00 3.20.20.450 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › EAL domain 0.56 42.0 2.99e-01 81.3% 38.1%
5i3sC02 3.40.190.80 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › 0.56 38.0 3.20e-01 70.7% 90.2%
6ne6A01 1.10.400.10 Mainly Alpha › Orthogonal Bundle › GI Alpha 1, domain 2-like › GI Alpha 1, domain 2-like 0.55 46.0 4.04e-01 94.7% 79.8%
3r31A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.54 47.0 3.32e-01 100.0% 77.1%
1z06A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 37.0 3.00e-01 76.0% 36.4%
7by3B01 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.53 36.0 3.23e-01 72.0% 53.5%
2ekgA02 3.20.20.220 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › 0.52 37.0 2.71e-01 77.3% 27.2%
4chgA00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.52 36.0 3.08e-01 73.3% 70.7%
4pt1B00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.51 37.0 3.28e-01 81.3% 61.7%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5012131 2006.1.4.12 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN_6 0.79 49.0 4.16e-01 73.3% 40.0%
4976122 2006.1.4.12 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN_6 0.76 49.0 4.04e-01 73.3% 39.2%
None — 0.76 46.0 3.97e-01 73.3% 40.9%
5036539 2006.1.4.12 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN_6 0.74 48.0 3.99e-01 73.3% 40.0%
4638793 2006.1.4.12 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN_6 0.73 47.0 3.91e-01 73.3% 39.2%
5063790 2006.1.4.12 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN_6 0.70 44.0 3.79e-01 72.0% 40.0%
4970668 2006.1.4.12 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN_6 0.70 46.0 3.84e-01 73.3% 39.2%
4969457 2006.1.4.50 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › DUF3368 0.68 48.0 3.64e-01 73.3% 32.9%
4984748 2006.1.4.50 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › DUF3368 0.67 47.0 3.55e-01 73.3% 32.0%
4960123 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.66 46.0 3.52e-01 73.3% 36.5%
3795697 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.65 47.0 4.98e-01 78.7% 89.2%
3933853 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.64 45.0 4.62e-01 76.0% 78.6%
5063244 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.60 42.0 3.43e-01 76.0% 41.9%
5002342 2002.1.1.75 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › QRPTase_C 0.58 36.0 2.86e-01 73.3% 28.5%
3482565 109.4.1.369 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SNAPC1 0.58 48.0 4.05e-01 93.3% 79.2%
3938249 7523.1.1.0 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II 0.57 41.0 3.56e-01 76.0% 63.3%
4033320 2002.1.1.53 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Ala_racemase_N 0.56 37.0 2.68e-01 76.0% 21.7%
3777902 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.56 40.0 2.96e-01 76.0% 27.8%
3231881 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.55 41.0 3.77e-01 80.0% 68.0%
3939461 2004.1.1.135 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › PIF1 0.55 44.0 3.24e-01 90.7% 72.4%
4582905 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.55 39.0 3.01e-01 76.0% 53.5%
3999143 135.1.1.1 ↗ alpha arrays › Transducin (alpha subunit), insertion domain › Transducin (alpha subunit), insertion domain › Transducin (alpha subunit), insertion domain › G-alpha 0.55 45.0 3.93e-01 94.7% 72.0%
4012192 2002.1.1.0 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels 0.54 35.0 2.73e-01 72.0% 28.8%
4011279 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.54 39.0 2.78e-01 80.0% 70.0%
4029396 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.53 36.0 2.92e-01 82.7% 32.7%
3548834 109.4.1.470 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › INTS2 0.52 42.0 3.30e-01 94.7% 38.4%
4945277 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.52 38.0 3.24e-01 90.7% 42.8%
5042466 2007.1.5.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › ATC-like 0.51 40.0 3.36e-01 93.3% 52.7%
D2 medium residues 3-47_66-143
PDB
D3 medium residues 458-500_644-666
PDB
D4 medium residues 501-525_575-610
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF07267.18 best Nucleo_P87 51.2 1.30e-13 60.7% 5.1%
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3fxdB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 44.0 4.54e-01 80.3% 65.5%
3h6pC00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.60 46.0 4.78e-01 93.4% 89.3%
4jzaA02 1.10.520.60 Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › 0.57 39.0 3.11e-01 70.5% 53.4%
6cfcA01 1.10.530.10 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.51 42.0 3.20e-01 96.7% 60.9%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3686776 216.1.1.4 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › RWD 0.66 58.0 4.11e-01 96.7% 52.0%
3674675 2007.5.1.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › SGNH hydrolase › SGNH hydrolase › Lipase_GDSL 0.52 46.0 2.85e-01 98.4% 25.4%
D5 medium residues 526-574_611-643
PDB
Domain cluster: rep: vp80__YP_009666567__Oxyplax_ochracea_nucleopolyhedrovirus__2083176__D638-665_720-750
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF07267.18 best Nucleo_P87 81.9 6.60e-23 62.2% 8.0%
PF07267.18 Nucleo_P87 41.4 1.20e-10 41.5% 4.8%