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nucleocapsid
Euk-VirNairobi_sheep_disease_virus
nucleocapsid__YP_009361831__Nairobi_sheep_disease_virus__194540
Identity
- Accession:
- YP_009361831 ↗
- Protein ID:
- nucleocapsid
- Kingdom:
- euk
Quality
77.8
mean pLDDT
Taxonomy
Orthornavirae›
Negarnaviricota›
Bunyaviricetes›
Hareavirales›
Nairoviridae›
Orthonairovirus›
Nairobi_sheep_disease_virus
TaxID: 194540
Cluster
View cluster (24 members)3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
high
residues 197-297
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 | 131.7 | 4.80e-38 | 100.0% | 23.2% |
CATH (42)
| 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 › | 0.91 | 86.0 | 8.43e-01 | 100.0% | 95.4% |
| 1y4cA03 | 1.20.120.660 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain | 0.64 | 46.0 | 4.50e-01 | 90.1% | 68.1% |
| 3n2oA03 | 1.20.58.930 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.63 | 44.0 | 4.53e-01 | 86.1% | 76.0% |
| 1cunA01 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.62 | 50.0 | 4.99e-01 | 85.1% | 94.1% |
| 3ztaA00 | 1.10.490.130 | Mainly Alpha › Orthogonal Bundle › Globin-like › | 0.62 | 53.0 | 4.78e-01 | 94.1% | 69.1% |
| 1bf5A01 | 1.20.1050.20 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › STAT transcription factor, all-alpha domain | 0.61 | 55.0 | 4.64e-01 | 100.0% | 94.6% |
| 3nbxX03 | 1.20.58.1510 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.61 | 45.0 | 4.59e-01 | 78.2% | 81.2% |
| 4oydB00 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.61 | 48.0 | 4.63e-01 | 85.1% | 93.2% |
| 7drjB01 | 1.20.120.1760 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CDP-alcohol phosphotransferase transmembrane (TM) domain | 0.60 | 49.0 | 3.99e-01 | 86.1% | 51.9% |
| 3h36A00 | 1.10.10.400 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain | 0.60 | 43.0 | 4.83e-01 | 77.2% | 96.2% |
| 3ezhA00 | 1.20.120.960 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Histidine kinase NarX, sensor domain | 0.60 | 43.0 | 4.14e-01 | 87.1% | 64.9% |
| 1sumB01 | 1.20.58.220 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 | 0.60 | 48.0 | 4.76e-01 | 86.1% | 88.8% |
| 6ofsA02 | 3.30.830.10 | Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like | 0.60 | 44.0 | 3.46e-01 | 77.2% | 71.7% |
| 4tpjA00 | 1.20.1250.20 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains | 0.60 | 44.0 | 2.90e-01 | 76.2% | 33.9% |
| 1ugoA00 | 1.20.58.120 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain | 0.60 | 44.0 | 4.48e-01 | 82.2% | 78.8% |
| 4eadA01 | 1.20.970.10 | Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C | 0.59 | 47.0 | 4.68e-01 | 95.0% | 82.2% |
| 3cegA00 | 3.10.110.10 | Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme | 0.59 | 53.0 | 3.83e-01 | 100.0% | 68.2% |
| 2g2dA00 | 1.20.1200.10 | Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like | 0.59 | 53.0 | 4.53e-01 | 100.0% | 73.8% |
| 4jgwA01 | 1.20.870.10 | Mainly Alpha › Up-down Bundle › Son of sevenless (SoS) protein; Chain S, domain 1 › Son of sevenless (SoS) protein Chain: S domain 1 | 0.58 | 50.0 | 4.33e-01 | 94.1% | 69.2% |
| 1sumB02 | 1.20.58.220 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 | 0.58 | 46.0 | 4.37e-01 | 84.2% | 78.0% |
| 1quuA01 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.58 | 46.0 | 4.32e-01 | 86.1% | 77.8% |
| 3ck6C02 | 1.20.58.340 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region | 0.58 | 46.0 | 4.35e-01 | 85.1% | 84.0% |
| 3rc3A05 | 1.20.58.1080 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.58 | 47.0 | 4.61e-01 | 90.1% | 84.1% |
| 1t72A02 | 1.20.58.220 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 | 0.58 | 46.0 | 4.66e-01 | 85.1% | 95.9% |
| 2w91A01 | 3.20.20.80 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases | 0.57 | 51.0 | 3.55e-01 | 100.0% | 52.0% |
| 4lunU00 | 1.25.40.180 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.57 | 49.0 | 3.50e-01 | 95.0% | 36.0% |
| 5h5mA02 | 1.20.120.230 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like | 0.57 | 46.0 | 4.22e-01 | 89.1% | 66.9% |
| 2qwoB00 | 1.10.287.110 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain | 0.57 | 42.0 | 4.38e-01 | 78.2% | 97.8% |
| 3lbxB01 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.57 | 45.0 | 4.48e-01 | 86.1% | 91.6% |
| 4u72A01 | 1.20.58.480 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.57 | 51.0 | 3.95e-01 | 100.0% | 81.5% |
| 2jqqA00 | 1.20.58.1240 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.56 | 48.0 | 4.20e-01 | 96.0% | 71.4% |
| 5k29A00 | 1.20.920.10 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like | 0.55 | 46.0 | 4.71e-01 | 98.0% | 93.8% |
| 2yfaA02 | 1.20.1440.210 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › | 0.54 | 47.0 | 4.48e-01 | 93.1% | 93.1% |
| 4od4A02 | 1.20.120.1780 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › UbiA prenyltransferase | 0.54 | 45.0 | 4.30e-01 | 90.1% | 77.3% |
| 2hkuB00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.53 | 42.0 | 3.45e-01 | 85.1% | 76.8% |
| 1khvA05 | 1.20.960.20 | Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › | 0.52 | 40.0 | 4.12e-01 | 100.0% | 86.6% |
| 3mvuA00 | 1.20.910.10 | Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like | 0.52 | 44.0 | 3.45e-01 | 94.1% | 84.8% |
| 2gshA01 | 3.30.390.10 | Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain | 0.52 | 44.0 | 3.78e-01 | 93.1% | 88.9% |
| 1q16C01 | 1.20.950.20 | Mainly Alpha › Up-down Bundle › Fumarate Reductase Cytochrome B subunit › Transmembrane di-heme cytochromes, Chain C | 0.52 | 39.0 | 3.11e-01 | 81.2% | 93.5% |
| 3r2qA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.51 | 44.0 | 4.26e-01 | 95.0% | 89.4% |
| 1s9qA00 | 1.10.565.10 | Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor | 0.51 | 44.0 | 3.39e-01 | 94.1% | 77.2% |
| 1i36A02 | 1.10.1040.10 | Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 | 0.51 | 40.0 | 4.05e-01 | 84.2% | 99.0% |
ECOD (42)
| 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 | 0.91 | 87.0 | 5.39e-01 | 100.0% | 21.7% |
| 3559718 | 604.1.1.1 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin | 0.63 | 51.0 | 4.97e-01 | 85.1% | 90.0% |
| 4374650 | 601.54.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › low CO2-inducible protein LCI1 › low CO2-inducible protein LCI1 | 0.63 | 44.0 | 3.81e-01 | 71.3% | 89.7% |
| 3572779 | 3855.1.1.1 ↗ | alpha arrays › Serum amyloid A-1 protein › Serum amyloid A-1 protein › Serum amyloid A-1 protein › SAA | 0.63 | 50.0 | 4.89e-01 | 93.1% | 79.1% |
| 5080292 | 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 | 0.63 | 46.0 | 3.54e-01 | 76.2% | 68.2% |
| 4828003 | 310.2.1.0 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF | 0.62 | 50.0 | 4.70e-01 | 85.1% | 90.1% |
| 3591734 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.62 | 53.0 | 3.66e-01 | 95.0% | 54.3% |
| 3778551 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.62 | 49.0 | 4.76e-01 | 86.1% | 90.4% |
| 4556484 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.61 | 49.0 | 4.59e-01 | 86.1% | 80.8% |
| 3918080 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.61 | 50.0 | 5.07e-01 | 87.1% | 92.0% |
| 3854888 | 109.4.1.480 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TMEM214 | 0.61 | 50.0 | 3.52e-01 | 93.1% | 27.9% |
| 3678302 | 109.4.1.496 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Sec5 | 0.61 | 50.0 | 3.58e-01 | 94.1% | 38.5% |
| 3386489 | 4121.1.1.0 ↗ | a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like | 0.60 | 50.0 | 4.19e-01 | 89.1% | 87.1% |
| 3570651 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.60 | 46.0 | 4.80e-01 | 83.2% | 95.8% |
| 3488077 | 604.12.1.0 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain | 0.59 | 47.0 | 4.82e-01 | 85.1% | 96.8% |
| 3406198 | 1075.4.1.0 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold | 0.58 | 49.0 | 3.33e-01 | 91.1% | 60.6% |
| 5083475 | 4121.1.1.1 ↗ | a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA | 0.58 | 51.0 | 3.75e-01 | 97.0% | 62.9% |
| 3613793 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.58 | 46.0 | 3.98e-01 | 92.1% | 53.8% |
| 3745853 | 603.2.1.1 ↗ | alpha bundles › STAT-like › STAT › STAT › STAT_alpha | 0.58 | 52.0 | 4.29e-01 | 100.0% | 90.8% |
| 3218643 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.58 | 46.0 | 4.56e-01 | 85.1% | 93.3% |
| 5057918 | 7516.1.1.2 ↗ | a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 | 0.57 | 52.0 | 3.65e-01 | 100.0% | 77.8% |
| 3665152 | 9001.1.1.3 ↗ | alpha bundles › TMEM120/ELO/TLC › TMEM120/ELO/TLC › TMEM120/ELO/TLC › TMPIT | 0.57 | 51.0 | 3.82e-01 | 100.0% | 79.6% |
| 3436346 | 604.5.1.32 ↗ | alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › TMEM120A-B | 0.57 | 50.0 | 3.79e-01 | 100.0% | 79.6% |
| 3894911 | 604.1.1.1 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin | 0.57 | 45.0 | 4.39e-01 | 85.1% | 90.9% |
| 3577620 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.57 | 46.0 | 4.40e-01 | 87.1% | 88.7% |
| 3183105 | 109.10.1.1 ↗ | alpha superhelices › Repetitive alpha hairpins › Translin › Translin › Translin | 0.56 | 48.0 | 3.73e-01 | 95.0% | 79.6% |
| 3621681 | 604.1.1.139 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › DUF7799 | 0.56 | 45.0 | 4.70e-01 | 86.1% | 92.6% |
| 5055683 | 109.10.1.1 ↗ | alpha superhelices › Repetitive alpha hairpins › Translin › Translin › Translin | 0.56 | 47.0 | 4.04e-01 | 95.0% | 87.1% |
| 3219419 | 109.4.1.368 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SHNi-TPR | 0.55 | 48.0 | 3.45e-01 | 96.0% | 44.7% |
| 3897990 | 150.3.1.23 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine › IL11 | 0.54 | 43.0 | 3.67e-01 | 86.1% | 76.5% |
| 3179076 | 604.7.1.1 ↗ | alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A › TBCA | 0.54 | 45.0 | 4.20e-01 | 91.1% | 97.7% |
| 3530376 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.53 | 42.0 | 4.37e-01 | 85.1% | 98.9% |
| 3909550 | 633.21.1.0 ↗ | alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 | 0.53 | 47.0 | 4.23e-01 | 99.0% | 85.5% |
| 3930618 | 601.1.2.0 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) | 0.52 | 48.0 | 4.29e-01 | 100.0% | 88.6% |
| 3475509 | 633.21.1.0 ↗ | alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 | 0.52 | 48.0 | 3.94e-01 | 100.0% | 78.3% |
| 4213065 | 150.1.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin | 0.52 | 47.0 | 4.03e-01 | 99.0% | 79.4% |
| 4958743 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.52 | 42.0 | 4.09e-01 | 88.1% | 82.6% |
| 3703524 | 174.1.1.0 ↗ | few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain | 0.51 | 46.0 | 4.31e-01 | 100.0% | 96.0% |
| 3797208 | 174.1.1.0 ↗ | few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain | 0.51 | 46.0 | 4.03e-01 | 100.0% | 71.3% |
| 3400202 | 174.1.1.0 ↗ | few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain | 0.51 | 45.0 | 4.11e-01 | 98.0% | 92.6% |
| 3782069 | 633.21.1.0 ↗ | alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 | 0.50 | 45.0 | 4.09e-01 | 98.0% | 88.1% |
| 3483197 | 174.1.1.0 ↗ | few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain | 0.50 | 44.0 | 3.87e-01 | 98.0% | 79.3% |
D2
medium
residues 79-165
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 | 117.3 | 1.20e-33 | 100.0% | 19.4% |
D3
medium
residues 166-189_304-415
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 | 210.4 | 6.50e-62 | 84.6% | 25.1% |