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nucleocapsid

Euk-Vir

Estero_Real_virus

nucleocapsid__YP_010085112__Estero_Real_virus__2170057

Identity

Accession:: YP_010085112 ↗
Protein ID:: nucleocapsid
Kingdom:: euk

Quality

78.2 mean pLDDT

Taxonomy

Orthornavirae› Negarnaviricota› Bunyaviricetes› Hareavirales› Nairoviridae› Orthonairovirus› Estero_Real_virus

TaxID: 2170057

Cluster

View cluster (24 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 199-305

PDB

Domain cluster: rep: nucleoprotein__YP_009553334__Tunis_virus__1810944__D200-304

CATH (21)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3u3iA02	1.20.58.1110	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.76	66.0	6.60e-01	94.4%	91.7%
2j1dG01	1.20.58.2220	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Formin, FH2 domain	0.67	53.0	3.65e-01	86.0%	50.5%
4j05A00	1.20.1250.20	Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains	0.67	46.0	3.03e-01	71.0%	71.1%
4fxdA04	3.90.1600.10	Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain	0.66	50.0	4.45e-01	79.4%	86.9%
2b1eA01	1.20.58.1150	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.64	43.0	4.78e-01	81.3%	84.9%
3vkgB03	1.20.58.1120	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dynein motor heavy chain, linker domain, subdomain 4	0.63	51.0	4.49e-01	86.9%	71.8%
2crbA00	1.20.58.80	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit	0.62	40.0	4.23e-01	88.8%	72.2%
1orsC00	1.20.120.350	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels. Chain C	0.62	37.0	3.47e-01	100.0%	47.0%
4i1eA03	1.25.10.30	Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › IP3 receptor type 1 binding core, RIH domain	0.60	53.0	4.92e-01	100.0%	99.3%
2x6hA01	1.25.40.70	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Phosphatidylinositol 3-kinase, accessory domain (PIK)	0.60	49.0	4.16e-01	95.3%	52.2%
3k3uA00	1.10.490.10	Mainly Alpha › Orthogonal Bundle › Globin-like › Globins	0.59	46.0	4.30e-01	84.1%	86.9%
4qndA00	1.20.1280.290	Mainly Alpha › Up-down Bundle › Monooxygenase ›	0.59	41.0	4.33e-01	78.5%	79.4%
2v0pA00	1.25.40.540	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › TAP42-like family	0.59	44.0	3.51e-01	78.5%	71.6%
1wrdA00	1.20.58.160	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.57	44.0	4.55e-01	83.2%	87.8%
1s35A01	1.20.58.60	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.57	44.0	4.57e-01	83.2%	97.0%
4cqiA00	1.20.58.90	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.55	40.0	4.01e-01	73.8%	92.5%
1vdyA00	1.25.40.90	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat ›	0.55	45.0	4.15e-01	99.1%	68.6%
5b00A00	1.10.600.10	Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase	0.53	44.0	3.35e-01	90.7%	49.8%
3t6gB00	1.20.120.230	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like	0.53	40.0	3.72e-01	86.0%	63.4%
2j9wB00	1.20.120.1130	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Vps28 C-terminal domain	0.52	31.0	3.27e-01	85.0%	63.6%
5wp3B00	1.10.132.20	Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor	0.50	38.0	3.89e-01	80.4%	90.2%

ECOD (29)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3198311	5050.1.1.9 ↗	alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1	0.65	44.0	3.50e-01	71.0%	35.6%
3309555	109.4.1.603 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TAF1_subA	0.63	53.0	3.51e-01	95.3%	32.3%
3592817	650.1.1.1 ↗	alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain › DnaJ	0.62	45.0	4.49e-01	81.3%	73.6%
4540817	5050.1.1.9 ↗	alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1	0.62	42.0	3.38e-01	71.0%	37.0%
3857243	109.4.1.891 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HEAT_HEATR1	0.60	53.0	4.17e-01	99.1%	58.7%
3951071	6102.1.1.1 ↗	alpha arrays › N-terminal domain of segregation and condensation protein A, ScpA › N-terminal domain of segregation and condensation protein A, ScpA › N-terminal domain of segregation and condensation protein A, ScpA › SMC_ScpA	0.60	37.0	3.27e-01	89.7%	41.2%
3373023	109.4.1.127 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MIF4G_like	0.59	50.0	4.22e-01	94.4%	54.6%
3606308	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.58	44.0	4.24e-01	82.2%	89.6%
3592315	7583.1.1.0 ↗	a/b three-layered sandwiches › Rossmann-like domain in AF1104-like proteins › Rossmann-like domain in AF1104-like proteins › Rossmann-like domain in AF1104-like proteins	0.56	45.0	3.22e-01	87.9%	75.1%
4304666	532.1.1.0 ↗	alpha arrays › Type III secretion system domain-like › Antibiotic binding domain of TipA-like multidrug resistance regulators › Antibiotic binding domain of TipA-like multidrug resistance regulators	0.55	43.0	4.43e-01	89.7%	89.0%
4054419	604.12.1.78 ↗	alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › FUSC	0.55	49.0	4.30e-01	100.0%	90.3%
4947640	4121.1.1.1 ↗	a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA	0.55	47.0	3.56e-01	92.5%	63.1%
3530696	109.4.1.942 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › NOT1_connector	0.55	45.0	3.63e-01	99.1%	44.5%
3693258	604.7.1.1 ↗	alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A › TBCA	0.55	41.0	4.14e-01	78.5%	96.4%
3641813	604.6.1.1 ↗	alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT	0.55	43.0	4.51e-01	83.2%	93.7%
4960871	4121.1.1.1 ↗	a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA	0.54	46.0	3.52e-01	92.5%	62.8%
3898382	604.1.1.1 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin	0.54	45.0	4.18e-01	86.9%	77.7%
4942736	603.1.1.0 ↗	alpha bundles › STAT-like › t-snare proteins › t-snare proteins	0.54	43.0	4.35e-01	83.2%	96.2%
4983096	109.2.1.32 ↗	alpha superhelices › Repetitive alpha hairpins › alpha/alpha toroid › alpha/alpha toroid › SQHop_cyclase_C	0.54	48.0	3.45e-01	99.1%	64.6%
3176648	603.1.1.6 ↗	alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Syntaxin_2	0.54	47.0	3.92e-01	100.0%	97.0%
3232907	109.4.1.1386 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Ints3_N, HEAT_Ints3_C	0.54	47.0	2.88e-01	100.0%	50.1%
3760050	109.4.1.71 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › IFRD_C,IFRD	0.54	47.0	3.22e-01	100.0%	79.5%
3704699	603.1.1.0 ↗	alpha bundles › STAT-like › t-snare proteins › t-snare proteins	0.54	42.0	4.47e-01	83.2%	94.7%
4028766	181.1.1.1 ↗	alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N	0.53	36.0	3.93e-01	84.1%	83.3%
3957336	604.5.1.2 ↗	alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU	0.53	42.0	4.34e-01	83.2%	88.0%
3935027	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.53	40.0	4.19e-01	81.3%	90.0%
4962478	5050.1.1.9 ↗	alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1	0.52	38.0	3.05e-01	76.6%	80.9%
3642682	603.1.1.5 ↗	alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Syntaxin-6_N	0.51	39.0	3.89e-01	83.2%	92.2%
3282883	4121.1.1.1 ↗	a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA	0.51	45.0	3.37e-01	100.0%	57.9%

D2 medium residues 41-87_152-194_421-497

PDB

Domain cluster: rep: nucleocapside__YP_009111286__Leopards_Hill_virus__1381104__D44-75_156-179_418-493

D3 medium residues 88-151

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	38.3	1.10e-09	100.0%	13.3%

D4 medium residues 316-420

PDB

Domain cluster: rep: nucleocapsid_protein,_partial__YP_009666114__Chim_orthonairovirus__2170062__D314-412

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02477.21 best	Nairo_nucleo	95.5	4.70e-27	100.0%	23.5%