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nucleocapside

Euk-Vir

Leopards_Hill_virus

nucleocapside__YP_009111286__Leopards_Hill_virus__1381104

Identity

Accession:: YP_009111286 ↗
Protein ID:: nucleocapside
Kingdom:: euk

Quality

86.0 mean pLDDT

Taxonomy

Orthornavirae› Negarnaviricota› Bunyaviricetes› Hareavirales› Nairoviridae› Orthonairovirus› Leopards_Hill_virus

TaxID: 1381104

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 181-304

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	28.4	1.10e-06	92.7%	21.0%

D2 medium residues 44-75_156-179_418-493

PDB

Domain cluster: representative

CATH (4)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3efzB00	1.20.190.20	Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › 14-3-3 domain	0.57	38.0	3.26e-01	100.0%	40.4%
8a0rA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.53	37.0	3.80e-01	97.7%	73.1%
6srbA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.51	34.0	3.63e-01	98.5%	80.7%
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	0.50	39.0	3.77e-01	85.6%	71.2%

ECOD (5)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3404404	5050.1.1.2 ↗	alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › PTR2	0.53	38.0	3.32e-01	75.8%	94.3%
3796495	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.52	39.0	3.19e-01	93.2%	40.8%
5080775	1076.1.1.1 ↗	alpha bundles › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Rce1-like	0.52	45.0	3.80e-01	92.4%	88.8%
3177042	601.1.1.0 ↗	alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin	0.52	37.0	3.98e-01	98.5%	88.2%
4569046	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	0.50	37.0	3.12e-01	75.8%	81.2%

D3 medium residues 76-155

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	90.6	1.40e-25	100.0%	17.4%

CATH (14)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4hr1A00	1.20.1270.410	Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 ›	0.59	45.0	4.05e-01	83.7%	78.0%
4h63H01	1.20.58.1710	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.58	38.0	3.97e-01	71.2%	73.6%
3tbiB02	6.10.140.1670	Special › Helix non-globular › Helix Hairpins ›	0.58	40.0	3.70e-01	71.2%	77.0%
2q5zB00	1.10.287.1080	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like	0.57	39.0	3.72e-01	70.0%	68.1%
3ed5A02	1.10.150.240	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2	0.57	38.0	3.77e-01	90.0%	64.3%
1op1A00	1.20.81.10	Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain	0.57	44.0	4.46e-01	86.3%	84.1%
1kyoF00	1.10.287.20	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Ubiquinol-cytochrome C reductase hinge domain	0.57	42.0	4.38e-01	80.0%	87.8%
3idwA00	1.10.150.50	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Transcription Factor, Ets-1	0.54	32.0	3.49e-01	88.7%	71.2%
2y39A00	1.20.120.1490	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) ›	0.54	42.0	3.85e-01	87.5%	100.0%
4m70I00	1.20.5.4130	Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces ›	0.53	40.0	3.68e-01	81.2%	63.9%
2etdA00	1.20.1440.20	Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › LemA-like domain	0.51	39.0	3.31e-01	85.0%	47.5%
3a98B01	6.10.10.90	Special › Helix non-globular › Helicase, Ruva Protein; domain 3 ›	0.51	35.0	3.51e-01	71.2%	70.4%
3pxpA01	1.10.260.40	Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains	0.50	35.0	3.36e-01	90.0%	62.4%
5mi7A03	1.20.58.460	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hyaluronidase post-catalytic domain-like	0.50	41.0	2.93e-01	91.3%	78.4%

ECOD (25)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1723600	3574.1.1.1 ↗	alpha complex topology › Nucleocapsid protein › Nucleocapsid protein › Nucleocapsid protein › Nairo_nucleo	0.98	94.0	5.57e-01	100.0%	16.7%
1681656	3574.1.1.1 ↗	alpha complex topology › Nucleocapsid protein › Nucleocapsid protein › Nucleocapsid protein › Nairo_nucleo	0.98	94.0	6.93e-01	100.0%	45.8%
4890819	3574.1.1.1 ↗	alpha complex topology › Nucleocapsid protein › Nucleocapsid protein › Nucleocapsid protein › Nairo_nucleo	0.97	93.0	5.50e-01	100.0%	16.8%
3718035	101.1.1.0 ↗	alpha arrays › HTH › HTH › Three-helical HTH	0.70	50.0	5.43e-01	76.2%	92.3%
5024032	150.5.1.0 ↗	alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like	0.69	47.0	3.71e-01	71.2%	35.0%
4608728	633.1.1.6 ↗	alpha bundles › Bromodomain-like › Bromodomain › Bromodomain › PF27833	0.65	48.0	4.44e-01	80.0%	98.1%
3930423	101.1.1.0 ↗	alpha arrays › HTH › HTH › Three-helical HTH	0.61	32.0	3.63e-01	86.3%	65.0%
5046473	601.3.1.0 ↗	alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain	0.59	43.0	4.18e-01	77.5%	94.4%
4615969	150.8.1.0 ↗	alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE	0.57	41.0	3.31e-01	77.5%	86.3%
4009705	639.2.1.0 ↗	alpha arrays › HHA-like › Regulator of acid resistance influenced by indole (AriR) › Regulator of acid resistance influenced by indole (AriR)	0.55	39.0	4.42e-01	91.3%	98.3%
3884035	611.2.1.0 ↗	alpha bundles › N-cbl like › N-terminal domain of cbl (N-cbl) › N-terminal domain of cbl (N-cbl)	0.55	40.0	3.50e-01	77.5%	59.2%
3948672	639.2.1.1 ↗	alpha arrays › HHA-like › Regulator of acid resistance influenced by indole (AriR) › Regulator of acid resistance influenced by indole (AriR) › YmgB	0.54	36.0	4.26e-01	86.3%	100.0%
4295116	6130.1.1.1 ↗	alpha complex topology › Selenocysteine synthase N-terminal domain › Selenocysteine synthase N-terminal domain › Selenocysteine synthase N-terminal domain › Se-cys_synth_N	0.54	35.0	3.63e-01	80.0%	69.3%
4985999	4994.1.1.0 ↗	alpha duplicates or obligate multimers › EF2458-like › EF2458-like › EF2458-like	0.54	37.0	3.78e-01	76.2%	72.5%
5076400	5058.1.1.0 ↗	alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region	0.54	36.0	3.45e-01	73.8%	58.9%
5028644	7516.1.1.26 ↗	a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glyco_tranf_2_3	0.54	46.0	3.23e-01	100.0%	55.1%
4946345	3684.1.1.0 ↗	alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like	0.53	42.0	3.52e-01	85.0%	87.9%
3806923	185.1.1.4 ↗	alpha superhelices › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin-like › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin/Protein HNS-dependent expression A HdeA › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin › Prolamin_like	0.53	37.0	3.53e-01	73.8%	94.7%
4011921	148.1.3.0 ↗	alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain	0.52	34.0	3.14e-01	98.8%	50.5%
5011112	7516.1.1.79 ↗	a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glyco_trans_2_3	0.52	44.0	2.94e-01	100.0%	65.8%
3586382	601.1.2.4 ↗	alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › Talin_R4	0.52	37.0	3.47e-01	76.2%	81.0%
3282465	5069.1.3.0 ↗	alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits	0.51	36.0	3.41e-01	72.5%	82.1%
5012157	605.1.1.354 ↗	alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › MS_channel_1st_1	0.51	40.0	3.94e-01	85.0%	96.5%
4940088	5058.1.1.16 ↗	alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1	0.51	40.0	3.75e-01	88.7%	88.6%
3740087	633.15.1.1 ↗	alpha bundles › Bromodomain-like › alpha-ketoacid dehydrogenase kinase-N › alpha-ketoacid dehydrogenase kinase-N › BCDHK_Adom3	0.50	40.0	3.25e-01	90.0%	54.5%

D4 medium residues 340-417

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	84.0	1.50e-23	100.0%	17.4%