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putative_structural_protein

Euk-Vir

Planococcus_citri_densovirus

putative_structural_protein__NP_694842__Planococcus_citri_densovirus__159153

Identity

Accession:
NP_694842 ↗
Protein ID:
putative_structural_protein
Kingdom:
euk

Quality

53.1 mean pLDDT

Taxonomy

Shotokuvirae› Cossaviricota› Quintoviricetes› Piccovirales› Parvoviridae› Scindoambidensovirus› Planococcus_citri_densovirus

TaxID: 159153

Cluster

View cluster (2 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 187-200_240-270_283-296_381-414_510-560
PDB
Domain cluster: rep: viral_polypeptide_VP3__NP_046817__Diatraea_saccharalis_densovirus__72003__D84-100_130-164_296-322_423-447
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02336.22 best Denso_VP4 43.7 3.80e-11 34.0% 14.6%
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2g8gA00 2.170.30.10 Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 0.78 73.0 4.83e-01 100.0% 87.8%
3t30C00 2.60.120.340 Mainly Beta › Sandwich › Jelly Rolls › Nucleoplasmin core domain 0.66 43.0 5.24e-01 91.0% 100.0%
5ewnA01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.65 59.0 5.41e-01 97.2% 97.8%
1c8nC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.65 59.0 5.11e-01 97.9% 84.0%
1smvC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.65 59.0 5.11e-01 98.6% 85.6%
1ng0C00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.65 59.0 5.07e-01 97.9% 85.3%
3napB00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.64 58.0 4.86e-01 98.6% 83.8%
2tbvA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.63 57.0 4.51e-01 97.9% 58.0%
3jciA00 2.60.120.950 Mainly Beta › Sandwich › Jelly Rolls › Circovirus capsid protein 0.63 57.0 5.18e-01 98.6% 96.8%
4rs5A00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.62 56.0 4.84e-01 97.9% 82.4%
6sk6A00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.62 56.0 4.54e-01 98.6% 69.6%
1ohfA02 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.62 56.0 4.44e-01 98.6% 91.2%
1b35A00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.62 56.0 4.57e-01 97.9% 90.8%
1wcdJ01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.62 56.0 4.45e-01 97.9% 72.2%
1fmd200 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.61 56.0 4.84e-01 99.3% 74.8%
1novA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.61 56.0 4.32e-01 99.3% 76.1%
4rft000 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.61 55.0 5.26e-01 97.9% 97.5%
2ws9100 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.61 55.0 4.57e-01 98.6% 78.5%
2ws9300 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.60 54.0 4.65e-01 97.2% 79.2%
5aca300 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.60 54.0 4.63e-01 96.5% 78.8%
1o6uA02 2.60.120.680 Mainly Beta › Sandwich › Jelly Rolls › GOLD domain 0.60 42.0 4.85e-01 88.2% 98.1%
1tme300 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.59 52.0 4.47e-01 97.2% 78.3%
6eiwA01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.57 50.0 4.60e-01 95.8% 100.0%
1dzlA00 2.60.175.20 Mainly Beta › Sandwich › Polyomavirus Vp1; Chain A › Major capsid L1 (late) superfamily, Papillomavirus 0.56 50.0 3.59e-01 100.0% 84.0%
3b7yA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.55 40.0 4.07e-01 75.0% 90.3%
3gf6A00 2.60.120.750 Mainly Beta › Sandwich › Jelly Rolls › Protein of unknown function DUF3845 0.54 46.0 4.08e-01 95.8% 89.5%
1p8jA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.53 44.0 4.58e-01 95.8% 97.0%
1g0dA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 35.0 3.96e-01 94.4% 87.3%
4ie5A01 2.60.120.590 Mainly Beta › Sandwich › Jelly Rolls › Alpha-ketoglutarate-dependent dioxygenase AlkB-like 0.52 43.0 3.48e-01 96.5% 47.7%
2cjsA01 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.52 37.0 3.69e-01 74.3% 85.0%
3w57A00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.51 37.0 4.15e-01 73.6% 100.0%
2wq4A01 2.60.120.760 Mainly Beta › Sandwich › Jelly Rolls › 0.51 42.0 4.43e-01 95.1% 99.2%
2eigA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 44.0 3.80e-01 94.4% 100.0%
3ideA02 2.60.120.660 Mainly Beta › Sandwich › Jelly Rolls › icosahedral virus 0.51 45.0 4.58e-01 97.9% 100.0%
ECOD (48)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1197 10.2.1.28 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Denso_VP4 0.92 89.0 6.13e-01 100.0% 88.4%
3106452 10.2.1.28 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Denso_VP4 0.91 88.0 6.03e-01 100.0% 88.6%
1112407 10.2.1.28 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Denso_VP4 0.89 85.0 6.02e-01 100.0% 88.9%
3473996 10.2.1.0 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.74 69.0 5.44e-01 100.0% 94.6%
178766 10.2.1.53 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › IHHNV_capsid 0.70 65.0 5.06e-01 100.0% 86.6%
3613397 10.2.1.55 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › NPL 0.66 43.0 5.20e-01 91.0% 100.0%
1204 10.2.1.69 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Rhv_5 0.64 58.0 4.59e-01 98.6% 64.6%
152483 10.2.1.1 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Rhv 0.63 57.0 4.57e-01 97.9% 65.4%
3910447 10.32.1.4 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › EMP24_GP25L 0.61 42.0 4.42e-01 88.9% 76.9%
2579092 10.2.1.44 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › CRPV_capsid 0.61 55.0 4.45e-01 97.9% 80.5%
3563711 10.32.1.4 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › EMP24_GP25L 0.60 42.0 3.89e-01 92.4% 55.7%
1866052 10.2.1.44 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › CRPV_capsid 0.59 53.0 4.69e-01 97.9% 76.0%
3566949 11.2.1.86 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › PF26735 0.58 45.0 4.11e-01 79.9% 97.8%
3701810 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.58 45.0 4.89e-01 91.7% 97.5%
3762740 10.4.1.0 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain 0.58 43.0 4.64e-01 91.0% 91.7%
5033996 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.57 49.0 4.11e-01 93.1% 99.6%
3825099 11.2.1.17 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › NT-C2 0.57 42.0 4.02e-01 77.1% 85.3%
3241208 10.4.1.0 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain 0.56 40.0 4.50e-01 92.4% 95.5%
3924036 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.56 44.0 3.97e-01 81.9% 87.7%
3187496 10.12.1.19 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Ureidogly_lyase 0.55 45.0 3.88e-01 95.1% 55.9%
5014883 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.55 43.0 4.68e-01 96.5% 100.0%
3627270 11.2.1.32 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › DOCK_N 0.55 41.0 3.64e-01 77.8% 89.5%
3786014 10.32.1.237 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Mid1 0.55 46.0 4.67e-01 89.6% 97.9%
2707156 10.2.1.4 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Late_protein_L1 0.55 49.0 3.43e-01 99.3% 73.3%
3606438 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.54 41.0 4.05e-01 79.2% 98.7%
3726520 11.2.1.17 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › NT-C2 0.54 41.0 4.02e-01 79.9% 98.8%
2806413 10.2.1.4 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Late_protein_L1 0.54 47.0 3.32e-01 95.8% 76.1%
5045890 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.54 46.0 4.67e-01 93.1% 93.8%
3344805 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.54 45.0 4.01e-01 91.7% 67.9%
3232214 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.53 43.0 4.14e-01 85.4% 89.1%
3612751 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.53 46.0 4.70e-01 93.1% 95.7%
3481503 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.53 40.0 3.89e-01 79.9% 91.5%
3640946 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.52 40.0 4.09e-01 79.9% 95.7%
3631712 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.52 40.0 4.03e-01 79.2% 91.0%
3223537 11.2.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › PI3K_C2 0.52 42.0 3.68e-01 85.4% 74.9%
3235629 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.52 45.0 4.24e-01 93.8% 100.0%
4944601 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.52 40.0 4.27e-01 90.3% 96.7%
3166569 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.52 39.0 4.03e-01 77.8% 97.8%
3477359 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.52 37.0 4.01e-01 74.3% 100.0%
3822933 207.1.1.43 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_3 0.51 42.0 2.88e-01 93.8% 23.8%
3998891 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.51 46.0 3.96e-01 97.9% 97.8%
4000080 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.51 38.0 3.82e-01 76.4% 87.6%
3805836 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.51 41.0 4.26e-01 93.1% 90.4%
3520278 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.51 43.0 4.09e-01 91.0% 82.3%
3227342 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.51 38.0 3.96e-01 76.4% 97.7%
3260805 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.51 44.0 3.99e-01 93.8% 100.0%
3224982 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.51 36.0 2.72e-01 73.6% 42.5%
3764995 11.2.1.43 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2+FerI 0.50 40.0 3.74e-01 84.0% 77.8%