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nucleocapsid_protein

Euk-Vir

Scophthalmus_maximus_rhabdovirus

nucleocapsid_protein__YP_009094340__Scophthalmus_maximus_rhabdovirus__936149

Identity

Accession:: YP_009094340 ↗
Protein ID:: nucleocapsid_protein
Kingdom:: euk

Quality

85.2 mean pLDDT

Taxonomy

Orthornavirae› Negarnaviricota› Monjiviricetes› Mononegavirales› Rhabdoviridae› Scophrhavirus› Scophthalmus_maximus_rhabdovirus

TaxID: 936149

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 medium residues 31-128

PDB

Domain cluster: rep: nucleoprotein__YP_010229214__Almendravirus_balsa__1972684__D37-133

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00945.24 best	Rhabdo_ncap	48.8	7.10e-13	96.9%	19.3%

CATH (2)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2gttC01	1.10.3570.10	Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like fold › Rhabdovirus nucleocapsid protein like domain	0.81	75.0	5.85e-01	99.0%	50.0%
3hhwK01	1.10.3570.10	Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like fold › Rhabdovirus nucleocapsid protein like domain	0.77	69.0	5.53e-01	98.0%	51.9%

ECOD (7)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4846751	566.2.1.1 ↗	alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap	0.83	78.0	5.46e-01	100.0%	35.5%
2992377	566.2.1.1 ↗	alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap	0.82	78.0	5.07e-01	100.0%	26.6%
2966640	566.2.1.1 ↗	alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap	0.78	73.0	4.73e-01	100.0%	24.5%
4655407	3755.3.1.0 ↗	alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin	0.56	27.0	2.19e-01	79.6%	26.5%
4012048	2004.1.1.0 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases	0.52	38.0	2.68e-01	77.6%	80.3%
4947380	2004.1.1.94 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ATP_bind_1	0.51	40.0	3.05e-01	85.7%	95.5%
4989913	2004.1.1.0 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases	0.50	38.0	2.90e-01	83.7%	87.9%

D2 medium residues 129-226_273-284

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00945.24 best	Rhabdo_ncap	77.3	1.60e-21	99.1%	23.9%

CATH (9)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3hhwK01	1.10.3570.10	Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like fold › Rhabdovirus nucleocapsid protein like domain	0.86	68.0	5.57e-01	81.8%	49.7%
1yuzB01	1.20.1260.10	Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle	0.58	46.0	4.33e-01	87.3%	92.8%
1orjD00	1.20.120.340	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS	0.57	37.0	3.60e-01	99.1%	59.2%
4x5mA00	1.20.1280.290	Mainly Alpha › Up-down Bundle › Monooxygenase ›	0.56	37.0	4.10e-01	94.5%	86.0%
3hhcC00	1.20.1250.60	Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › Interferon lambda	0.54	39.0	3.56e-01	75.5%	57.6%
3q1xA01	1.10.3130.10	Mainly Alpha › Orthogonal Bundle › serine acetyltransferase, domain 1 › serine acetyltransferase, domain 1	0.54	39.0	3.59e-01	73.6%	89.9%
3renA00	1.50.10.10	Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase ›	0.54	43.0	3.16e-01	89.1%	88.1%
4mhlA00	1.20.1250.10	Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; ›	0.51	37.0	3.30e-01	75.5%	62.7%
1a8rA01	1.10.286.10	Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › GTP cyclohydrolase I, N-terminal domain	0.51	26.0	2.98e-01	73.6%	63.5%

ECOD (2)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2966640	566.2.1.1 ↗	alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap	0.93	90.0	5.81e-01	100.0%	39.3%
5063672	109.10.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › Translin › Translin	0.52	36.0	3.07e-01	92.7%	43.6%

D3 medium residues 227-272_285-340

PDB

Domain cluster: rep: nucleocapsid_protein__YP_009551688__Merida-like_virus_KE-2017a__1969830__D268-379

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00945.24 best	Rhabdo_ncap	61.7	8.60e-17	100.0%	27.1%

CATH (8)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2gicD02	1.10.3610.10	Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like › Nucleoprotein	0.97	94.0	7.26e-01	100.0%	58.5%
2gttJ02	1.10.3610.10	Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like › Nucleoprotein	0.91	87.0	6.84e-01	100.0%	60.0%
4fp4A00	1.10.600.10	Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase	0.54	42.0	3.26e-01	84.3%	82.3%
1fdyB00	3.20.20.70	Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I	0.52	47.0	3.37e-01	100.0%	85.2%
6pmiF01	1.10.1740.10	Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif	0.51	31.0	3.43e-01	100.0%	76.2%
3piwA00	1.20.1250.10	Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; ›	0.51	46.0	3.99e-01	100.0%	89.6%
2gsvA00	6.10.140.40	Special › Helix non-globular › Helix Hairpins ›	0.51	29.0	3.49e-01	95.1%	85.1%
1ihgA02	1.25.40.10	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain	0.50	35.0	3.11e-01	71.6%	56.6%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2966640	566.2.1.1 ↗	alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap	0.96	92.0	5.89e-01	100.0%	28.5%
2992377	566.2.1.1 ↗	alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap	0.93	88.0	5.78e-01	100.0%	30.9%
3915087	566.1.1.0 ↗	alpha complex topology › P40 nucleoprotein-like › P40 nucleoprotein-related › P40 nucleoprotein-related	0.69	63.0	4.39e-01	100.0%	32.2%
4122237	109.4.1.356 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fungal_trans	0.55	45.0	3.39e-01	95.1%	45.3%
4978937	3447.1.1.4 ↗	alpha bundles › Isoprenylcysteine carboxyl methyltransferase (ICMT) › Isoprenylcysteine carboxyl methyltransferase (ICMT) › Isoprenylcysteine carboxyl methyltransferase (ICMT) › PEMT	0.55	44.0	3.66e-01	89.2%	91.1%
3323926	142.1.1.0 ↗	alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors	0.51	31.0	3.20e-01	95.1%	62.0%

D4 medium residues 379-430

PDB

Domain cluster: representative

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3pr6A00	3.30.450.70	Alpha Beta › 2-Layer Sandwich › Beta-Lactamase ›	0.53	41.0	3.07e-01	88.5%	84.1%