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nucleocapsid_protein
Euk-VirRice_stripe_mosaic_virus
nucleocapsid_protein__YP_009553363__Rice_stripe_mosaic_virus__1931356
Identity
- Accession:
- YP_009553363 ↗
- Protein ID:
- nucleocapsid_protein
- Kingdom:
- euk
Quality
70.6
mean pLDDT
Taxonomy
Orthornavirae›
Negarnaviricota›
Monjiviricetes›
Mononegavirales›
Rhabdoviridae›
Betacytorhabdovirus›
Rice_stripe_mosaic_virus
TaxID: 1931356
Cluster
View cluster (144 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 329-479
Domain cluster:
rep: nucleocapsid_protein__YP_010087150__Cytorhabdovirus_caricae__2364291__D277-416_434-447
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF03216.19 best | Rhabdo_ncap_2 | 64.8 | 1.20e-17 | 57.6% | 30.2% |
D2
medium
residues 42-100_224-328
Domain cluster:
rep: N_protein__YP_010086409__Maize_yellow_striate_virus__1168550__D39-103_154-262
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF03216.19 best | Rhabdo_ncap_2 | 32.8 | 6.90e-08 | 67.1% | 32.3% |
CATH (21)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5gmkZ01 | 1.25.40.180 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.63 | 39.0 | 3.52e-01 | 98.2% | 44.0% |
| 2vsoF01 | 1.25.40.180 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.61 | 43.0 | 3.81e-01 | 100.0% | 51.1% |
| 4nqfA00 | 1.20.120.330 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 | 0.61 | 31.0 | 3.33e-01 | 98.8% | 53.8% |
| 2jqqA00 | 1.20.58.1240 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.59 | 45.0 | 4.64e-01 | 99.4% | 84.4% |
| 5cwhA01 | 1.25.10.10 | Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant | 0.58 | 38.0 | 3.89e-01 | 100.0% | 67.3% |
| 4gmnA00 | 1.25.10.10 | Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant | 0.57 | 43.0 | 2.95e-01 | 99.4% | 23.2% |
| 4flbA00 | 1.25.40.90 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.56 | 37.0 | 4.08e-01 | 100.0% | 83.2% |
| 4epzA00 | 1.25.40.810 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › UpxZ | 0.55 | 36.0 | 3.73e-01 | 98.8% | 70.1% |
| 4iluA02 | 1.20.58.1290 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › CarD-like, C-terminal domain | 0.54 | 28.0 | 3.35e-01 | 90.2% | 72.1% |
| 5ulcX00 | 1.20.920.10 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like | 0.53 | 30.0 | 3.47e-01 | 84.8% | 75.4% |
| 4hkaA01 | 1.20.58.480 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.53 | 47.0 | 3.94e-01 | 99.4% | 81.0% |
| 4uyeA00 | 1.20.920.10 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like | 0.53 | 30.0 | 3.66e-01 | 84.1% | 85.3% |
| 1zk8B02 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.52 | 30.0 | 3.28e-01 | 84.8% | 67.4% |
| 4j8sA00 | 1.25.40.840 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › CCR4-NOT transcription complex subunit 1 TTP binding domain | 0.52 | 36.0 | 3.56e-01 | 100.0% | 64.4% |
| 5uiyA00 | 1.20.920.10 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like | 0.52 | 31.0 | 3.81e-01 | 88.4% | 91.6% |
| 5pg1A00 | 1.20.920.10 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like | 0.52 | 30.0 | 3.58e-01 | 84.8% | 82.6% |
| 1elkA00 | 1.25.40.90 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.52 | 41.0 | 4.27e-01 | 100.0% | 90.8% |
| 4qnsA00 | 1.20.920.10 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like | 0.51 | 30.0 | 3.66e-01 | 84.8% | 89.6% |
| 1np7A02 | 1.25.40.80 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.51 | 27.0 | 3.11e-01 | 85.4% | 68.9% |
| 6cw0A00 | 1.20.920.10 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like | 0.51 | 30.0 | 3.71e-01 | 84.8% | 93.3% |
| 1f68A00 | 1.20.920.10 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like | 0.50 | 30.0 | 3.64e-01 | 84.8% | 92.2% |
ECOD (10)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2756727 | 566.1.1.1 ↗ | alpha complex topology › P40 nucleoprotein-like › P40 nucleoprotein-related › P40 nucleoprotein-related › Paramyxo_ncap | 0.69 | 63.0 | 4.73e-01 | 100.0% | 69.8% |
| 2749214 | 566.1.1.1 ↗ | alpha complex topology › P40 nucleoprotein-like › P40 nucleoprotein-related › P40 nucleoprotein-related › Paramyxo_ncap | 0.67 | 61.0 | 4.67e-01 | 100.0% | 71.2% |
| 1815422 | 566.1.1.3 ↗ | alpha complex topology › P40 nucleoprotein-like › P40 nucleoprotein-related › P40 nucleoprotein-related › Pneumo_ncap | 0.65 | 60.0 | 5.37e-01 | 100.0% | 97.3% |
| 3706567 | 109.4.1.1164 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › zf-MYND | 0.57 | 36.0 | 3.06e-01 | 99.4% | 38.8% |
| 3253102 | 109.4.1.142 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › CSN8_PSD8_EIF3K | 0.55 | 38.0 | 3.53e-01 | 98.8% | 55.2% |
| 3601283 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.54 | 44.0 | 3.26e-01 | 98.8% | 34.2% |
| 3385031 | 109.4.1.1455 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF27814 | 0.53 | 48.0 | 4.09e-01 | 99.4% | 64.4% |
| 144027 | 4163.1.1.1 ↗ | alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 | 0.52 | 31.0 | 3.71e-01 | 82.9% | 86.5% |
| 3526151 | 168.1.1.0 ↗ | alpha arrays › Sec7 domain › Sec7 domain › Sec7 domain | 0.51 | 37.0 | 3.77e-01 | 73.2% | 88.1% |
| 3209765 | 109.4.1.1162 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Arm_4 | 0.50 | 46.0 | 3.59e-01 | 100.0% | 69.9% |
D3
medium
residues 128-194