←Back to structures

putative_coat_protein

Euk-Vir

Panax_notoginseng_virus_A

putative_coat_protein__YP_009225664__Panax_notoginseng_virus_A__1777016

Identity

Accession:
YP_009225664 ↗
Protein ID:
putative_coat_protein
Kingdom:
euk

Quality

83.1 mean pLDDT

Cluster

View cluster (13 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 medium residues 17-61_549-577_665-684
PDB
Domain cluster: rep: hypothetical_protein_1__YP_009336495__Hubei_toti-like_virus_2__1923308__D26-53_555-582_671-694
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF09220.17 best LA-virus_coat 35.0 7.80e-09 61.7% 11.9%
D2 medium residues 62-120
PDB
Domain cluster: rep: capsid_protein__YP_009182173__Red_clover_powdery_mildew-associated_totivirus_1__1714362__D71-114
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF09220.17 best LA-virus_coat 66.8 1.80e-18 100.0% 13.5%
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1m1cA00 3.90.1840.10 Alpha Beta › Alpha-Beta Complex › Major capsid protein › Major capsid protein 0.89 82.0 4.55e-01 100.0% 9.1%
3kxyT00 6.20.290.10 Special › Other non-globular › Dna Ligase; domain 1 › 0.69 41.0 3.98e-01 72.9% 52.3%
3s0aA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.67 51.0 4.16e-01 86.4% 46.2%
3f5dA00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.66 49.0 3.42e-01 78.0% 88.6%
7ewsA01 1.10.135.10 Mainly Alpha › Orthogonal Bundle › Transferase Creatine Kinase; Chain A, domain 1 › ATP:guanido phosphotransferase, N-terminal domain 0.65 50.0 4.22e-01 83.1% 79.6%
2iylD01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.65 45.0 4.41e-01 76.3% 67.7%
6pw7A01 1.10.238.180 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › 0.62 46.0 4.34e-01 83.1% 74.7%
2r0bA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.62 45.0 3.47e-01 81.4% 71.5%
8gf5C01 3.30.70.470 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 47.0 3.63e-01 86.4% 93.7%
1i9sA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.60 46.0 3.31e-01 86.4% 61.9%
1oheA01 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.59 45.0 3.39e-01 83.1% 78.5%
4c0kA01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.56 40.0 3.54e-01 81.4% 63.4%
1ofcX04 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.56 41.0 3.57e-01 79.7% 53.2%
5ja4D00 1.25.40.20 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Ankyrin repeat-containing domain 0.53 40.0 3.07e-01 83.1% 94.0%
4fajA03 3.10.105.10 Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 0.53 41.0 2.84e-01 86.4% 74.7%
5ewpA00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.51 36.0 2.52e-01 78.0% 35.7%
3dlbB03 2.170.260.50 Mainly Beta › Beta Complex › paz domain › 0.51 32.0 2.88e-01 78.0% 42.5%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
7654 4065.1.1.1 ↗ a+b complex topology › L-A virus major coat protein-related › L-A virus major coat protein-related › L-A virus major coat protein-related › LA-virus_coat 0.89 82.0 4.55e-01 100.0% 9.1%
2845347 199.1.1.1 ↗ alpha arrays › Guanido kinase-N › Guanido kinase-N › Guanido kinase-N › ATP-gua_PtransN 0.66 49.0 4.04e-01 79.7% 51.4%
4511885 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.65 44.0 4.32e-01 71.2% 86.2%
3203608 558.1.1.0 ↗ alpha duplicates or obligate multimers › Lis-homology dimerization domain › Lis-homology dimerization domain › Lis-homology dimerization domain 0.64 47.0 4.03e-01 78.0% 87.4%
5010036 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.63 50.0 3.86e-01 86.4% 84.6%
3621272 708.1.1.16 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › RYYR-CCHC 0.60 44.0 3.53e-01 83.1% 94.1%
3489318 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.59 43.0 3.56e-01 79.7% 73.9%
3933680 2488.1.1.0 ↗ a/b three-layered sandwiches › alpha/beta knot › alpha/beta knot › alpha/beta knot 0.57 41.0 2.81e-01 78.0% 75.7%
4961908 101.1.6.0 ↗ alpha arrays › HTH › HTH › TrpR 0.56 38.0 3.58e-01 74.6% 76.2%
3290966 2007.1.1.3 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › DJ-1_PfpI 0.54 39.0 2.79e-01 79.7% 65.7%
3717603 102.1.1.0 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like 0.52 37.0 3.47e-01 83.1% 89.4%
None — 0.51 42.0 2.53e-01 93.2% 72.0%
4317205 2004.1.1.59 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › CoaE 0.51 43.0 2.97e-01 96.6% 80.5%
3433976 109.3.1.96 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank+Ank_2+Ank_4 0.51 39.0 2.49e-01 91.5% 41.4%
D3 medium residues 121-290_326-347
PDB
Domain cluster: rep: putative_coat_protein__YP_001531162__Alphachrysovirus_cerasi__284687__D184-333
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF09220.17 best LA-virus_coat 222.1 1.30e-65 88.5% 38.8%
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1m1cA00 3.90.1840.10 Alpha Beta › Alpha-Beta Complex › Major capsid protein › Major capsid protein 0.91 88.0 5.81e-01 100.0% 34.6%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
7654 4065.1.1.1 ↗ a+b complex topology › L-A virus major coat protein-related › L-A virus major coat protein-related › L-A virus major coat protein-related › LA-virus_coat 0.91 88.0 5.81e-01 100.0% 34.6%
4821589 4065.1.1.1 ↗ a+b complex topology › L-A virus major coat protein-related › L-A virus major coat protein-related › L-A virus major coat protein-related › LA-virus_coat 0.76 72.0 5.50e-01 100.0% 52.0%
3735533 4065.1.1.0 ↗ a+b complex topology › L-A virus major coat protein-related › L-A virus major coat protein-related › L-A virus major coat protein-related 0.63 53.0 4.05e-01 92.2% 40.5%
1291943 4065.1.1.3 ↗ a+b complex topology › L-A virus major coat protein-related › L-A virus major coat protein-related › L-A virus major coat protein-related › Fungal_virus_P2_C 0.59 56.0 4.10e-01 99.5% 81.4%
5000509 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.58 29.0 3.29e-01 99.0% 61.4%
D4 medium residues 291-325_348-435
PDB
Domain cluster: representative
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF09220.17 best LA-virus_coat 98.8 3.30e-28 73.2% 19.9%
PF09220.17 LA-virus_coat 37.0 1.80e-09 30.1% 8.0%
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1m1cA00 3.90.1840.10 Alpha Beta › Alpha-Beta Complex › Major capsid protein › Major capsid protein 0.89 85.0 5.18e-01 100.0% 22.4%
3f2eA00 1.20.58.800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 32.0 3.71e-01 82.9% 88.0%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
7654 4065.1.1.1 ↗ a+b complex topology › L-A virus major coat protein-related › L-A virus major coat protein-related › L-A virus major coat protein-related › LA-virus_coat 0.89 85.0 5.18e-01 100.0% 22.4%
4112439 5045.1.1.1 ↗ alpha bundles › F1F0 ATP synthase subunit A › F1F0 ATP synthase subunit A › F1F0 ATP synthase subunit A › ATP-synt_A 0.51 37.0 3.09e-01 76.4% 85.6%
D5 medium residues 473-531
PDB
Domain cluster: representative
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1usyC00 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.53 47.0 3.02e-01 100.0% 28.1%
2vl7A02 1.10.275.30 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › 0.52 45.0 3.68e-01 96.6% 55.5%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2537576 160.1.1.4 ↗ alpha superhelices › C-terminal domain of alpha and beta subunits of F1 ATP synthase › C-terminal domain of alpha and beta subunits of F1 ATP synthase › C-terminal domain of alpha and beta subunits of F1 ATP synthase › ATP-synt_VA_C 0.73 56.0 4.63e-01 83.1% 79.2%
3599010 2501.1.1.0 ↗ a/b three-layered sandwiches › Peptidyl-tRNA hydrolase II › Peptidyl-tRNA hydrolase II › Peptidyl-tRNA hydrolase II 0.64 54.0 4.15e-01 93.2% 78.5%
D6 medium residues 696-759
PDB