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nucleocapsid_protein

Euk-Vir

Eggplant_mottled_dwarf_nucleorhabdovirus

nucleocapsid_protein__YP_009094352__Eggplant_mottled_dwarf_nucleorhabdovirus__488317

Identity

Accession:: YP_009094352 ↗
Protein ID:: nucleocapsid_protein
Kingdom:: euk

Quality

73.6 mean pLDDT

Taxonomy

Orthornavirae› Negarnaviricota› Monjiviricetes› Mononegavirales› Rhabdoviridae› Alphanucleorhabdovirus› Eggplant_mottled_dwarf_virus

TaxID: 488317

Cluster

View cluster (144 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 39-123_153-256

PDB

Domain cluster: rep: N_protein__YP_010086409__Maize_yellow_striate_virus__1168550__D39-103_154-262

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03216.19 best	Rhabdo_ncap_2	44.9	1.40e-11	94.2%	38.8%

CATH (9)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3ebbA00	1.25.10.10	Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant	0.62	35.0	3.13e-01	92.1%	37.9%
7cc7A01	1.25.40.10	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain	0.62	37.0	3.53e-01	94.2%	49.8%
3o10C00	1.20.120.330	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2	0.61	29.0	3.32e-01	92.1%	58.8%
5jc3A02	1.20.1320.30	Mainly Alpha › Up-down Bundle › phosphoenolpyruvate carboxylase, domain 3 ›	0.56	34.0	4.07e-01	87.8%	89.7%
4wz9A04	1.25.50.20	Mainly Alpha › Alpha Horseshoe › Zincin-like fold ›	0.55	34.0	2.84e-01	94.2%	34.0%
6lcuA02	1.10.10.470	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Maltooligosyl trehalose synthase; domain 4	0.55	29.0	3.76e-01	77.2%	89.5%
2ff4A02	1.25.40.10	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain	0.54	31.0	3.17e-01	91.5%	56.6%
2xzeB00	1.20.58.80	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit	0.52	29.0	3.41e-01	78.3%	74.6%
3ipiA00	1.10.600.10	Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase	0.51	37.0	3.36e-01	91.5%	52.6%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3304076	109.4.1.493 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Noc2	0.56	38.0	3.78e-01	92.1%	65.0%
3390061	5063.1.1.22 ↗	alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › LIN9_C	0.52	26.0	3.32e-01	96.3%	79.1%
3176031	109.4.1.170 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › CLASP_N	0.52	38.0	2.45e-01	98.9%	15.7%
3277899	150.1.1.32 ↗	alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › DUF5931	0.51	34.0	3.58e-01	92.1%	73.5%
3596858	109.3.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat	0.51	36.0	3.30e-01	72.5%	84.2%
4170571	563.1.1.1 ↗	alpha bundles › ATPD N-terminal domain-like › N-terminal domain of the delta subunit of the F1F0-ATP synthase › N-terminal domain of the delta subunit of the F1F0-ATP synthase › OSCP	0.50	35.0	3.15e-01	70.9%	87.8%

D2 high residues 263-411

PDB

Domain cluster: rep: nucleocapsid__YP_009289348__Sanxia_Water_Strider_Virus_5__1608064__D276-411

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03216.19 best	Rhabdo_ncap_2	46.6	4.20e-12	57.0%	28.2%

CATH (6)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2gttJ02	1.10.3610.10	Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like › Nucleoprotein	0.77	60.0	5.50e-01	93.3%	63.2%
2gicD02	1.10.3610.10	Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like › Nucleoprotein	0.67	63.0	5.68e-01	100.0%	89.2%
4r8zA00	1.10.3210.10	Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432	0.54	44.0	3.94e-01	89.3%	90.8%
2w0gA00	1.20.58.610	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Cdc37, Hsp90 binding domain	0.53	33.0	3.51e-01	93.3%	71.3%
4lwsA00	1.10.287.1060	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like	0.52	25.0	3.12e-01	85.2%	71.0%
5kdiA00	1.10.3520.10	Mainly Alpha › Orthogonal Bundle › Glycolipid transfer protein, GLTP › Glycolipid transfer protein	0.52	44.0	3.96e-01	94.0%	84.4%

ECOD (8)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4974404	7014.1.1.1 ↗	alpha bundles › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › BacA	0.59	33.0	3.61e-01	85.2%	65.8%
3776468	2006.1.2.0 ↗	a/b three-layered sandwiches › HAD domain-like › HAD domain-related › DHH phosphoesterases	0.54	44.0	3.97e-01	85.2%	96.0%
3598088	101.1.10.0 ↗	alpha arrays › HTH › HTH › Cyclin-like	0.54	37.0	4.00e-01	96.0%	81.5%
4995421	3281.1.2.1 ↗	alpha complex topology › Sodium/proton antiporter subunits-like › Sodium/proton antiporter subunits-like › NADH-quinone oxidoreductase subunit 8 (Nqo8)-related › NADHdh	0.53	37.0	3.02e-01	71.1%	65.4%
4026429	109.3.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat	0.53	40.0	3.38e-01	78.5%	87.1%
1495253	150.5.1.1 ↗	alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › WXG100	0.52	25.0	3.12e-01	85.2%	71.0%
4937470	7014.1.1.1 ↗	alpha bundles › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › BacA	0.50	31.0	3.56e-01	82.6%	82.7%
4536357	2498.1.1.0 ↗	mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain"	0.50	37.0	3.28e-01	90.6%	51.6%