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nucleocapsid_protein
Euk-VirMerida-like_virus_KE-2017a
nucleocapsid_protein__YP_009551688__Merida-like_virus_KE-2017a__1969830
Identity
- Accession:
- YP_009551688 ↗
- Protein ID:
- nucleocapsid_protein
- Kingdom:
- euk
Quality
72.4
mean pLDDT
Taxonomy
Orthornavirae›
Negarnaviricota›
Monjiviricetes›
Mononegavirales›
Rhabdoviridae›
Merida-like_virus_KE-2017a
TaxID: 1969830
Cluster
View cluster (34 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
medium
residues 63-158
Domain cluster:
rep: nucleoprotein__YP_010229214__Almendravirus_balsa__1972684__D37-133
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00945.24 best | Rhabdo_ncap | 26.3 | 5.00e-06 | 95.8% | 17.3% |
CATH (8)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2gttC01 | 1.10.3570.10 | Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like fold › Rhabdovirus nucleocapsid protein like domain | 0.80 | 73.0 | 5.71e-01 | 99.0% | 49.5% |
| 3hhwK01 | 1.10.3570.10 | Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like fold › Rhabdovirus nucleocapsid protein like domain | 0.72 | 63.0 | 5.12e-01 | 97.9% | 51.4% |
| 3bosA02 | 1.10.8.60 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › | 0.59 | 24.0 | 2.90e-01 | 82.3% | 53.7% |
| 1j09A04 | 1.10.8.70 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Glutamate-tRNA synthetase, class I, anticodon-binding domain 1 | 0.54 | 24.0 | 3.26e-01 | 84.4% | 81.2% |
| 3jzjA01 | 3.40.190.10 | Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II | 0.53 | 37.0 | 2.97e-01 | 71.9% | 85.4% |
| 1rz4A01 | 1.25.40.250 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › ARM repeat; domain 1 | 0.52 | 37.0 | 3.40e-01 | 71.9% | 74.2% |
| 3g0oA02 | 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 | 36.0 | 3.31e-01 | 72.9% | 88.4% |
| 3a8tA01 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.50 | 42.0 | 3.49e-01 | 93.8% | 82.0% |
ECOD (3)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4846751 | 566.2.1.1 ↗ | alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap | 0.84 | 80.0 | 5.54e-01 | 100.0% | 35.1% |
| 2966640 | 566.2.1.1 ↗ | alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap | 0.81 | 73.0 | 4.72e-01 | 100.0% | 23.5% |
| 4012878 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.51 | 38.0 | 3.61e-01 | 78.1% | 77.4% |
D2
medium
residues 159-267
Domain cluster:
rep: nucleocapsid_protein__YP_009094340__Scophthalmus_maximus_rhabdovirus__936149__D129-226_273-284
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00945.24 best | Rhabdo_ncap | 49.7 | 3.80e-13 | 98.2% | 23.7% |
CATH (12)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1txgA02 | 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 | 0.67 | 58.0 | 5.19e-01 | 95.4% | 91.6% |
| 1td6A03 | 1.10.472.40 | Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Hypothetical protein mg237 homolog; domain 3 | 0.66 | 36.0 | 3.86e-01 | 90.8% | 60.9% |
| 3o7qA02 | 1.20.1250.20 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains | 0.57 | 44.0 | 3.71e-01 | 82.6% | 92.2% |
| 2c41C01 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.56 | 49.0 | 4.51e-01 | 99.1% | 96.6% |
| 1tjoB00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.56 | 48.0 | 4.20e-01 | 99.1% | 83.4% |
| 3iq1B00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.55 | 49.0 | 4.36e-01 | 99.1% | 91.2% |
| 1nfvA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.54 | 47.0 | 4.11e-01 | 99.1% | 79.9% |
| 2vxxA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.53 | 46.0 | 4.06e-01 | 99.1% | 84.9% |
| 4ezbA02 | 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 | 0.53 | 41.0 | 4.05e-01 | 91.7% | 76.9% |
| 2qqyA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.53 | 46.0 | 4.31e-01 | 99.1% | 96.4% |
| 8hk0B03 | 1.20.140.10 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 | 0.52 | 40.0 | 3.74e-01 | 81.7% | 94.9% |
| 2fp1B00 | 1.20.59.10 | Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase | 0.51 | 41.0 | 3.67e-01 | 89.9% | 92.1% |
ECOD (7)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3952992 | 1079.1.1.7 ↗ | alpha complex topology › Transmembrane reductase CcdA › Transmembrane reductase CcdA › Transmembrane reductase CcdA › SfLAP | 0.57 | 43.0 | 3.77e-01 | 80.7% | 96.5% |
| 4967801 | 3921.1.1.1 ↗ | alpha complex topology › Na(+)-translocating NADH-quinone reductase subunit D › Na(+)-translocating NADH-quinone reductase subunit D › Na(+)-translocating NADH-quinone reductase subunit D › Rnf-Nqr | 0.55 | 37.0 | 3.23e-01 | 70.6% | 97.8% |
| 3729395 | 633.21.1.0 ↗ | alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 | 0.52 | 38.0 | 3.64e-01 | 76.1% | 100.0% |
| 3517590 | 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 | 3.54e-01 | 78.0% | 86.2% |
| 3671851 | 5086.1.1.47 ↗ | alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › Auxin_canalis | 0.52 | 38.0 | 3.64e-01 | 80.7% | 77.8% |
| 4939930 | 1079.1.1.1 ↗ | alpha complex topology › Transmembrane reductase CcdA › Transmembrane reductase CcdA › Transmembrane reductase CcdA › DsbD | 0.51 | 39.0 | 3.28e-01 | 83.5% | 93.8% |
| 3923719 | 190.1.1.0 ↗ | alpha arrays › HMG-box-like › HMG-box › HMG-box | 0.51 | 40.0 | 3.71e-01 | 83.5% | 92.6% |
D3
medium
residues 268-379
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00945.24 best | Rhabdo_ncap | 80.8 | 1.40e-22 | 98.2% | 21.9% |
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2gicD02 | 1.10.3610.10 | Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like › Nucleoprotein | 0.95 | 91.0 | 7.30e-01 | 100.0% | 57.4% |
| 2gttJ02 | 1.10.3610.10 | Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like › Nucleoprotein | 0.91 | 86.0 | 7.05e-01 | 100.0% | 58.9% |
| 4nkwA00 | 1.10.630.10 | Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 | 0.53 | 44.0 | 2.97e-01 | 92.9% | 70.3% |
| 4iejA00 | 1.10.10.60 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like | 0.52 | 33.0 | 3.88e-01 | 96.4% | 97.3% |
| 1wcrA00 | 1.20.58.80 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit | 0.51 | 29.0 | 3.08e-01 | 78.6% | 59.2% |
| 4leuA00 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.50 | 35.0 | 3.06e-01 | 71.4% | 83.5% |
ECOD (7)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2966640 | 566.2.1.1 ↗ | alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap | 0.94 | 90.0 | 5.88e-01 | 100.0% | 28.0% |
| 2992377 | 566.2.1.1 ↗ | alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap | 0.92 | 88.0 | 5.87e-01 | 100.0% | 30.4% |
| 1763953 | 566.1.1.3 ↗ | alpha complex topology › P40 nucleoprotein-like › P40 nucleoprotein-related › P40 nucleoprotein-related › Pneumo_ncap | 0.66 | 56.0 | 3.91e-01 | 100.0% | 28.5% |
| 3817989 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.56 | 43.0 | 3.99e-01 | 81.2% | 87.1% |
| 3448938 | 109.4.1.1262 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, PPR_long | 0.55 | 39.0 | 3.42e-01 | 72.3% | 67.1% |
| 3205622 | 109.4.1.356 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fungal_trans | 0.52 | 45.0 | 2.96e-01 | 98.2% | 82.1% |
| 3187233 | 109.4.1.356 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fungal_trans | 0.51 | 41.0 | 2.81e-01 | 90.2% | 77.4% |
D4
medium
residues 417-478
Domain cluster:
representative
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2js5A00 | 1.10.287.660 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.62 | 42.0 | 4.10e-01 | 71.0% | 88.7% |
| 4dciA00 | 6.10.140.1110 | Special › Helix non-globular › Helix Hairpins › | 0.61 | 47.0 | 3.64e-01 | 87.1% | 63.3% |
| 2hn1A02 | 1.20.58.340 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region | 0.58 | 40.0 | 3.43e-01 | 72.6% | 45.2% |
| 2y1vA04 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.56 | 43.0 | 3.11e-01 | 83.9% | 58.9% |
| 2w9mA02 | 1.10.150.20 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain | 0.56 | 41.0 | 4.01e-01 | 79.0% | 95.6% |
| 4ijjB00 | 1.20.120.910 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain | 0.52 | 42.0 | 3.50e-01 | 100.0% | 69.2% |
ECOD (7)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2966640 | 566.2.1.1 ↗ | alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap | 0.84 | 69.0 | 4.12e-01 | 88.7% | 13.8% |
| 3956181 | 3291.1.1.0 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related | 0.73 | 62.0 | 4.74e-01 | 91.9% | 54.8% |
| 4582542 | 192.11.1.1 ↗ | alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR | 0.64 | 45.0 | 4.54e-01 | 74.2% | 77.8% |
| 4962040 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.59 | 42.0 | 3.27e-01 | 90.3% | 34.3% |
| 4057021 | 605.4.1.20 ↗ | alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein › DUF6092 | 0.58 | 39.0 | 3.55e-01 | 72.6% | 48.9% |
| 3611580 | 3069.1.1.0 ↗ | alpha arrays › BART › BART › BART | 0.57 | 39.0 | 3.13e-01 | 71.0% | 98.4% |
| 3324469 | 109.4.1.1641 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR_3, PPR_long | 0.55 | 47.0 | 3.25e-01 | 100.0% | 34.3% |