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nucleoprotein

Euk-Vir

Thiafora_orthonairovirus

nucleoprotein__YP_009513193__Thiafora_orthonairovirus__1980529

Identity

Accession:: YP_009513193 ↗
Protein ID:: nucleoprotein
Kingdom:: euk

Quality

71.9 mean pLDDT

Taxonomy

Orthornavirae› Negarnaviricota› Bunyaviricetes› Hareavirales› Nairoviridae› Orthonairovirus› Orthonairovirus_thiaforaense

TaxID: 1980529

Cluster

View cluster (24 members)

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 1-77

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02477.21 best	Nairo_nucleo	47.1	2.30e-12	100.0%	17.4%

CATH (6)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4fxdA04	3.90.1600.10	Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain	0.59	42.0	3.37e-01	75.3%	69.3%
3a8pA02	6.10.140.680	Special › Helix non-globular › Helix Hairpins ›	0.58	42.0	3.70e-01	77.9%	51.8%
1zpyA00	6.10.140.1960	Special › Helix non-globular › Helix Hairpins ›	0.56	39.0	3.70e-01	72.7%	61.5%
4lqxA00	1.20.910.10	Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like	0.54	38.0	2.62e-01	75.3%	46.9%
1ybeB01	3.20.140.10	Alpha Beta › Alpha-Beta Barrel › nicotinate phosphoribosyltransferase › nicotinate phosphoribosyltransferase	0.54	36.0	2.31e-01	70.1%	59.1%
2wzkA01	1.20.1310.10	Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats	0.53	38.0	3.25e-01	75.3%	55.1%

ECOD (9)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1681656	3574.1.1.1 ↗	alpha complex topology › Nucleocapsid protein › Nucleocapsid protein › Nucleocapsid protein › Nairo_nucleo	0.98	92.0	6.68e-01	100.0%	41.9%
1723600	3574.1.1.1 ↗	alpha complex topology › Nucleocapsid protein › Nucleocapsid protein › Nucleocapsid protein › Nairo_nucleo	0.90	84.0	4.98e-01	100.0%	16.1%
3614094	4095.1.1.1 ↗	alpha bundles › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › DNA_ligase_A_N	0.67	41.0	3.45e-01	70.1%	36.9%
4945817	10.28.1.0 ↗	beta sandwiches › jelly-roll › Jelly-roll domain in Zinc finger protein ZPR1 › Jelly-roll domain in Zinc finger protein ZPR1	0.65	44.0	3.76e-01	71.4%	68.8%
4016635	3922.1.1.0 ↗	alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3	0.62	42.0	3.83e-01	70.1%	53.0%
4955780	3939.1.1.387 ↗	alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › DUF4349	0.61	41.0	4.42e-01	70.1%	81.5%
4251799	7.1.1.0 ↗	beta barrels › PDZ domain › PDZ domain › PDZ domain	0.55	46.0	3.56e-01	92.2%	75.9%
4012876	2484.1.1.0 ↗	mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like	0.51	35.0	2.54e-01	72.7%	47.3%
3253223	4006.1.1.1 ↗	alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF	0.50	35.0	3.09e-01	72.7%	89.6%

D2 medium residues 78-157_460-478

PDB

Domain cluster: rep: nucleoprotein__YP_009551659__Great_Saltee_virus__1810946__D96-157

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02477.21 best	Nairo_nucleo	70.4	1.90e-19	96.0%	18.5%

D3 medium residues 158-181_403-459

PDB

Domain cluster: representative

CATH (5)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2ffjA01	1.10.8.380	Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Uncharacterised protein PF01937, DUF89, domain 1	0.59	38.0	4.39e-01	81.5%	94.6%
3acxA00	1.10.600.10	Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase	0.59	40.0	2.79e-01	70.4%	46.8%
4cc9B00	1.20.5.4730	Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces ›	0.55	37.0	3.52e-01	70.4%	69.4%
1o57B02	3.40.50.2020	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold ›	0.53	32.0	2.42e-01	95.1%	24.5%
2g8lB01	1.10.8.380	Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Uncharacterised protein PF01937, DUF89, domain 1	0.52	36.0	3.89e-01	84.0%	88.1%

ECOD (10)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3704762	601.1.1.0 ↗	alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin	0.60	50.0	4.34e-01	91.4%	94.4%
3631605	610.1.1.1 ↗	alpha arrays › ERP29 C domain-like › ERP29 C domain-like › ERP29 C domain-like › ERp29	0.58	40.0	3.64e-01	70.4%	84.3%
3909949	219.1.1.56 ↗	a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C101	0.58	40.0	2.79e-01	72.8%	75.2%
4288336	6132.1.1.1 ↗	alpha bundles › Nudix hydrolase N-terminal dimerization domain › Nudix hydrolase N-terminal dimerization domain › Nudix hydrolase N-terminal dimerization domain › Nudix_N	0.56	37.0	4.08e-01	70.4%	86.2%
4109895	101.11.1.1 ↗	alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase	0.54	37.0	3.54e-01	74.1%	76.0%
5064035	4009.1.1.0 ↗	alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins	0.52	35.0	3.88e-01	82.7%	95.0%
3989058	142.1.1.48 ↗	alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › DUF7763	0.51	35.0	3.68e-01	71.6%	81.3%
3298699	601.14.1.1 ↗	alpha bundles › Four-helical up-and-down bundle › Hemerythrin › Hemerythrin › Hemerythrin	0.51	44.0	3.33e-01	96.3%	60.0%
3969413	101.1.4.0 ↗	alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like	0.51	39.0	4.14e-01	82.7%	98.6%
4633929	101.11.1.1 ↗	alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase	0.51	37.0	3.60e-01	77.8%	83.3%

D4 medium residues 191-290

PDB

Domain cluster: rep: nucleoprotein__YP_009553334__Tunis_virus__1810944__D200-304

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02477.21 best	Nairo_nucleo	52.0	7.50e-14	97.0%	20.3%

D5 medium residues 509-558

PDB