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nucleocapsid_protein

Euk-Vir

Alstroemeria_necrotic_streak_virus

nucleocapsid_protein__YP_010086066__Alstroemeria_necrotic_streak_virus__693450

Identity

Accession:
YP_010086066 ↗
Protein ID:
nucleocapsid_protein
Kingdom:
euk

Quality

70.8 mean pLDDT

Taxonomy

Orthornavirae› Negarnaviricota› Bunyaviricetes› Elliovirales› Tospoviridae› Orthotospovirus› Alstroemeria_necrotic_streak_virus

TaxID: 693450

Cluster

View cluster (18 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 34-125
PDB
Domain cluster: rep: nucleoprotein__YP_010086207__Caimito_virus__2572766__D12-126
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01533.23 best Tospo_nucleocap 53.8 2.50e-14 97.8% 28.1%
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3zlaD01 1.20.142.20 Mainly Alpha › Up-down Bundle › Poly(ADP-ribose) Polymerase; domain 1 › 0.85 79.0 7.06e-01 100.0% 87.3%
4iduB01 1.20.142.20 Mainly Alpha › Up-down Bundle › Poly(ADP-ribose) Polymerase; domain 1 › 0.85 79.0 6.99e-01 100.0% 86.6%
4bgpA01 1.20.142.20 Mainly Alpha › Up-down Bundle › Poly(ADP-ribose) Polymerase; domain 1 › 0.85 78.0 6.94e-01 100.0% 87.4%
3r4iA02 6.10.140.960 Special › Helix non-globular › Helix Hairpins › 0.65 41.0 4.91e-01 87.0% 98.3%
1cnt200 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.59 42.0 3.80e-01 73.9% 94.6%
1yhlA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.58 51.0 3.47e-01 100.0% 37.3%
3aqbB00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.58 51.0 3.54e-01 98.9% 36.1%
1g3jC00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.58 52.0 3.29e-01 97.8% 38.5%
1kqfA02 3.40.50.740 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 49.0 3.71e-01 97.8% 91.2%
3gi8C00 1.20.1740.10 Mainly Alpha › Up-down Bundle › Amino acid/polyamine transporter I › Amino acid/polyamine transporter I 0.57 48.0 3.14e-01 94.6% 52.0%
2lquA01 1.20.1420.40 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Decorin-binding protein 0.57 39.0 3.37e-01 71.7% 73.4%
4m0mA03 1.20.1270.430 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.55 31.0 3.34e-01 70.7% 62.0%
3vhlA02 1.20.58.740 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › DOCK DHR2 domain, lobe C 0.55 46.0 4.20e-01 91.3% 80.8%
1ezfC00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.54 43.0 2.99e-01 85.9% 43.4%
3skvA02 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.54 46.0 3.57e-01 93.5% 59.0%
4gouA03 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.53 45.0 3.67e-01 100.0% 98.5%
2jokA01 1.10.4120.10 Mainly Alpha › Orthogonal Bundle › SopE-like GEF fold › SopE-like, GEF domain 0.53 40.0 3.24e-01 79.3% 73.7%
7d3uC01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.52 37.0 3.53e-01 72.8% 72.0%
1tufA02 3.20.20.10 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Alanine racemase 0.52 37.0 2.73e-01 89.1% 27.0%
8ab6B02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.50 41.0 3.33e-01 90.2% 89.2%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2048169 3644.1.1.3 ↗ alpha complex topology › Leanyer virus nucleoprotein-related › Leanyer virus nucleoprotein-related › Leanyer virus nucleoprotein-related › Tospo_nucleocap 0.94 90.0 6.27e-01 100.0% 35.8%
5036394 101.1.9.152 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › HTH_28 0.59 42.0 3.45e-01 73.9% 46.5%
3929508 5050.1.1.11 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › UNC-93 0.57 44.0 3.34e-01 83.7% 66.0%
5074981 601.7.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HEPN 0.57 39.0 3.41e-01 70.7% 100.0%
4557434 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.56 50.0 3.62e-01 100.0% 45.4%
4021783 3615.1.1.0 ↗ alpha bundles › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain 0.56 40.0 3.50e-01 83.7% 48.3%
4585740 101.11.1.0 ↗ alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 0.55 45.0 4.55e-01 87.0% 100.0%
3903636 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.55 49.0 3.54e-01 100.0% 59.6%
4295850 5059.1.1.9 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › Sugar_transport 0.54 46.0 3.41e-01 100.0% 94.6%
4015213 3444.1.1.0 ↗ alpha arrays › DP domain › DP domain › DP domain 0.54 40.0 3.85e-01 83.7% 67.6%
4987764 601.2.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Cytochromes › Cytochromes 0.54 40.0 3.52e-01 79.3% 54.3%
3211053 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.53 42.0 3.56e-01 84.8% 84.5%
3506188 3787.3.1.1 ↗ alpha bundles › HAD superfamily helical bundle insertion domain › Insertion domain in cytosolic IMP-GMP specific 5'-nucleotidase › Insertion domain in cytosolic IMP-GMP specific 5'-nucleotidase › 5_nucleotid 0.53 40.0 3.27e-01 81.5% 86.7%
3928033 101.1.2.303 ↗ alpha arrays › HTH › HTH › winged helix domain › RPC5 0.52 40.0 3.88e-01 82.6% 90.5%
3867107 109.4.1.628 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Sec7-like_HUS 0.52 42.0 2.79e-01 92.4% 26.7%
4034151 604.39.1.9 ↗ alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters › Vut_1 0.52 44.0 3.42e-01 96.7% 58.6%
3742417 2007.1.19.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › FabD/lysophospholipase-like › Acyl_transf_1 0.52 36.0 2.76e-01 71.7% 53.5%
4607838 7011.1.1.1 ↗ alpha bundles › RodA transmembrane domain › RodA transmembrane domain › RodA transmembrane domain › FTSW_RODA_SPOVE 0.52 41.0 2.84e-01 89.1% 97.2%
4339431 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.51 33.0 3.76e-01 72.8% 92.3%
5005612 604.39.1.9 ↗ alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters › Vut_1 0.51 43.0 3.30e-01 96.7% 54.8%
3169484 109.4.1.1289 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF30856 0.51 42.0 2.48e-01 92.4% 12.0%
4214015 101.11.1.0 ↗ alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 0.50 43.0 4.14e-01 96.7% 88.2%
4565825 604.39.1.9 ↗ alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters › Vut_1 0.50 43.0 3.42e-01 96.7% 53.3%
D2 medium residues 126-249
PDB
Domain cluster: rep: N_protein__YP_009666323__Groundnut_ringspot_virus__12675__D129-221
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01533.23 best Tospo_nucleocap 85.8 4.40e-24 97.6% 46.2%