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nucleoprotein

Euk-Vir

Ryukyu_mammarenavirus

nucleoprotein__YP_009508472__Ryukyu_mammarenavirus__2169995

Identity

Accession:: YP_009508472 ↗
Protein ID:: nucleoprotein
Kingdom:: euk

Quality

80.9 mean pLDDT

Taxonomy

Orthornavirae› Negarnaviricota› Bunyaviricetes› Hareavirales› Arenaviridae› Mammarenavirus› Mammarenavirus_ryukyuense

TaxID: 2169995

Cluster

Singleton — not in a non-trivial cluster

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 369-549

PDB

Domain cluster: rep: nucleoprotein__YP_010086252__Dante_Muikkunen_virus_1__2447916__D386-583

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF17290.9 best	Arena_ncap_C	310.5	3.70e-93	90.6%	92.8%

D2 medium residues 3-27_82-123_259-335

PDB

Domain cluster: rep: nucleoprotein__YP_006590087__CAS_virus__1223561__D1-21_80-113_255-329

Pfam (3)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00843.23 best	Arena_nucleocap	147.3	7.70e-43	55.6%	23.6%
PF00843.23	Arena_nucleocap	50.0	3.00e-13	29.9%	12.6%
PF00843.23	Arena_nucleocap	29.4	5.50e-07	18.8%	7.5%

D3 medium residues 28-81

PDB

Domain cluster: rep: nucleoprotein__NP_694852__Lymphocytic_choriomeningitis_mammarenavirus__11623__D39-85_164-176

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00843.23 best	Arena_nucleocap	79.8	2.60e-22	100.0%	16.2%

D4 medium residues 166-258

PDB

Domain cluster: rep: nucleoprotein__YP_006590087__CAS_virus__1223561__D166-254

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00843.23 best	Arena_nucleocap	178.9	1.80e-52	100.0%	27.8%

CATH (10)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2om6A02	1.10.150.400	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 ›	0.67	47.0	5.08e-01	73.1%	96.2%
2ahoB02	1.10.150.190	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Translation initiation factor 2; subunit 1; domain 2	0.64	45.0	4.63e-01	74.2%	85.7%
1j1vA00	1.10.1750.10	Mainly Alpha › Orthogonal Bundle › Chromosomal Replication Initiator Protein Dnaa; Chain: A; › DnaA protein, C-terminal DNA-binding domain	0.59	40.0	4.01e-01	77.4%	68.1%
1lfuP00	1.10.10.60	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like	0.58	40.0	4.20e-01	90.3%	81.7%
3ed5A02	1.10.150.240	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2	0.56	41.0	4.32e-01	78.5%	90.5%
5xyjA02	3.40.47.10	Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase	0.53	41.0	3.52e-01	83.9%	98.7%
4ldsA00	1.20.1250.20	Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains	0.53	40.0	2.67e-01	81.7%	77.2%
2gz4A00	1.10.3210.10	Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432	0.52	43.0	3.41e-01	90.3%	70.0%
4akgA06	1.10.8.710	Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Dynein motor, AAA1 domain, small subdomain	0.52	38.0	3.69e-01	78.5%	75.7%
6n8eA02	3.30.559.30	Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Nonribosomal peptide synthetase, condensation domain	0.51	40.0	2.93e-01	83.9%	78.5%

ECOD (14)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
406722	3248.1.1.1 ↗	alpha complex topology › N-terminal domain in Lassa fever virus nucleoprotein › N-terminal domain in Lassa fever virus nucleoprotein › N-terminal domain in Lassa fever virus nucleoprotein › Arena_nucleocap	0.96	93.0	6.06e-01	100.0%	30.4%
3784455	627.1.1.1 ↗	alpha complex topology › VPS9 domain › VPS9 domain › VPS9 domain › VPS9	0.62	44.0	3.67e-01	74.2%	82.4%
3385990	101.1.6.4 ↗	alpha arrays › HTH › HTH › TrpR › Bac_DnaA_C	0.60	40.0	3.89e-01	77.4%	61.0%
5036344	2006.1.1.1 ↗	a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase	0.59	44.0	3.31e-01	78.5%	48.9%
3595503	129.1.1.0 ↗	alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like	0.56	42.0	3.55e-01	79.6%	64.5%
3284904	4070.1.1.4 ↗	alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M50B	0.56	47.0	3.66e-01	96.8%	95.0%
3475805	108.1.1.140 ↗	alpha arrays › EF-hand › EF-hand-related › EF-hand › EF_EFCAB10_C	0.55	35.0	3.78e-01	71.0%	76.2%
4125972	101.1.6.4 ↗	alpha arrays › HTH › HTH › TrpR › Bac_DnaA_C	0.54	37.0	3.63e-01	94.6%	65.0%
4957432	101.1.2.0 ↗	alpha arrays › HTH › HTH › winged helix domain	0.54	46.0	4.42e-01	95.7%	99.1%
3287336	323.1.1.5 ↗	a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Condensation	0.51	38.0	2.90e-01	81.7%	73.3%
4972032	5059.1.1.1 ↗	alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA	0.51	43.0	3.05e-01	92.5%	77.6%
5020814	3290.1.1.0 ↗	alpha complex topology › Cytosolic helical domain in ferrous iron transport protein B › Cytosolic helical domain in ferrous iron transport protein B › Cytosolic helical domain in ferrous iron transport protein B	0.51	39.0	4.02e-01	92.5%	86.7%
5039924	101.1.2.894 ↗	alpha arrays › HTH › HTH › winged helix domain › DUF2240	0.51	37.0	3.21e-01	87.1%	49.0%
3997392	106.1.1.1 ↗	alpha arrays › Globin-like › Globin-like › Globin-like › Globin	0.50	38.0	3.14e-01	81.7%	73.9%