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nucleocapsid
Euk-VirBole_Tick_Virus_2
nucleocapsid__YP_009287860__Bole_Tick_Virus_2__1608041
Identity
- Accession:
- YP_009287860 ↗
- Protein ID:
- nucleocapsid
- Kingdom:
- euk
Quality
74.6
mean pLDDT
Taxonomy
Orthornavirae›
Negarnaviricota›
Monjiviricetes›
Mononegavirales›
Rhabdoviridae›
Alpharicinrhavirus›
Bole_Tick_Virus_2
TaxID: 1608041
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 69-162_225-250
Domain cluster:
rep: nucleocapsid_protein__YP_008686596__Drosophila_obscura_sigmavirus_10A__666962__D36-146_214-247
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00945.24 best | Rhabdo_ncap | 29.6 | 4.80e-07 | 95.8% | 22.4% |
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3hhwK01 | 1.10.3570.10 | Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like fold › Rhabdovirus nucleocapsid protein like domain | 0.87 | 80.0 | 6.80e-01 | 97.5% | 97.8% |
| 2gttC01 | 1.10.3570.10 | Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like fold › Rhabdovirus nucleocapsid protein like domain | 0.86 | 80.0 | 6.69e-01 | 98.3% | 96.9% |
| 2qdfA02 | 3.10.20.310 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac | 0.50 | 27.0 | 3.14e-01 | 94.2% | 72.3% |
ECOD (4)
| 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 | 0.89 | 84.0 | 5.63e-01 | 100.0% | 44.7% |
| 2992377 | 566.2.1.1 ↗ | alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap | 0.88 | 84.0 | 5.73e-01 | 100.0% | 51.5% |
| 4846751 | 566.2.1.1 ↗ | alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap | 0.88 | 84.0 | 6.20e-01 | 100.0% | 68.8% |
| None | — | 0.52 | 25.0 | 3.03e-01 | 77.5% | 67.5% |
D2
medium
residues 163-224_251-279
Domain cluster:
representative
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1yuzB01 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.59 | 46.0 | 4.03e-01 | 84.6% | 95.7% |
| 7sl8A01 | 1.20.1730.10 | Mainly Alpha › Up-down Bundle › Sodium/glucose cotransporter › Sodium/glucose cotransporter | 0.56 | 48.0 | 2.98e-01 | 97.8% | 79.6% |
| 1aepA00 | 1.20.120.20 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein | 0.55 | 38.0 | 3.18e-01 | 70.3% | 87.6% |
| 2e9fB01 | 1.10.275.10 | Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) | 0.53 | 39.0 | 3.87e-01 | 78.0% | 82.3% |
| 4m70I00 | 1.20.5.4130 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.52 | 42.0 | 3.99e-01 | 87.9% | 74.1% |
| 7dfeA01 | 1.10.274.60 | Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Spidroin, repetitive domain | 0.52 | 37.0 | 3.36e-01 | 75.8% | 88.2% |
ECOD (7)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3379174 | 109.4.1.1845 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SWIM | 0.58 | 45.0 | 3.76e-01 | 81.3% | 87.3% |
| 4032838 | 5050.1.1.0 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter | 0.57 | 41.0 | 3.35e-01 | 78.0% | 93.9% |
| 4135698 | 143.2.1.1 ↗ | alpha arrays › PABP domain-like › Ribosomal protein L20 › Ribosomal protein L20 › Ribosomal_L20 | 0.56 | 36.0 | 3.28e-01 | 86.8% | 47.2% |
| 4288763 | 5086.1.1.123 ↗ | alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › DUF445 | 0.55 | 41.0 | 3.46e-01 | 80.2% | 82.5% |
| 5009863 | 150.1.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin | 0.55 | 40.0 | 3.88e-01 | 80.2% | 100.0% |
| 4426428 | 198.1.1.12 ↗ | alpha arrays › Saposin-like › Saposin-like › Saposin-like › DUF445 | 0.54 | 40.0 | 3.86e-01 | 78.0% | 70.5% |
| 3963858 | 628.1.1.1 ↗ | alpha bundles › Fatty acid responsive transcription factor FadR, C-terminal domain › Fatty acid responsive transcription factor FadR, C-terminal domain › Fatty acid responsive transcription factor FadR, C-terminal domain › FCD | 0.51 | 39.0 | 3.20e-01 | 87.9% | 43.0% |
D3
medium
residues 280-386
Domain cluster:
rep: nucleocapsid_protein__YP_009551688__Merida-like_virus_KE-2017a__1969830__D268-379
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00945.24 best | Rhabdo_ncap | 61.4 | 1.10e-16 | 94.4% | 23.4% |
CATH (5)
| 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 | 0.90 | 87.0 | 6.85e-01 | 100.0% | 81.0% |
| 2gttJ02 | 1.10.3610.10 | Mainly Alpha › Orthogonal Bundle › Rhabdovirus nucleoprotein-like › Nucleoprotein | 0.88 | 83.0 | 6.67e-01 | 100.0% | 80.5% |
| 6tmfT00 | 1.10.60.20 | Mainly Alpha › Orthogonal Bundle › Diphtheria Toxin Repressor; domain 2 › Ribosomal protein S17 | 0.58 | 22.0 | 2.82e-01 | 99.1% | 54.7% |
| 1dtoA01 | 1.10.287.30 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › E2 (early) protein, N terminal domain, subdomain 1 | 0.52 | 30.0 | 3.11e-01 | 79.4% | 56.9% |
| 1yo7A00 | 1.20.120.230 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like | 0.51 | 36.0 | 3.56e-01 | 88.8% | 66.7% |
ECOD (3)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2992377 | 566.2.1.1 ↗ | alpha complex topology › P40 nucleoprotein-like › Rhabdovirus nucleocapsid protein › Rhabdovirus nucleocapsid protein › Rhabdo_ncap | 0.91 | 82.0 | 5.44e-01 | 94.4% | 27.4% |
| 3739454 | 192.5.1.38 ↗ | alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat › NEDD4_Bsd2 | 0.52 | 29.0 | 2.94e-01 | 84.1% | 53.3% |
| 3601755 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.51 | 44.0 | 2.87e-01 | 100.0% | 19.6% |
D4
medium
residues 433-485
Domain cluster:
representative
CATH (5)
| 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 | 0.89 | 77.0 | 5.07e-01 | 94.3% | 25.6% |
| 4mtxD00 | 1.10.287.130 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain | 0.61 | 43.0 | 3.65e-01 | 77.4% | 75.8% |
| 2rkhA02 | 1.20.1280.20 | Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain | 0.56 | 43.0 | 4.02e-01 | 94.3% | 84.2% |
| 2e52B01 | 3.40.91.70 | Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › Type II restriction endonuclease, HindIII | 0.54 | 46.0 | 3.04e-01 | 98.1% | 32.1% |
| 1u00A02 | 1.20.1270.10 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › | 0.50 | 35.0 | 3.07e-01 | 79.2% | 46.9% |
ECOD (9)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3995535 | 148.1.3.0 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain | 0.74 | 50.0 | 4.40e-01 | 71.7% | 52.5% |
| 3803972 | 130.1.1.0 ↗ | alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif | 0.61 | 39.0 | 3.60e-01 | 100.0% | 48.6% |
| 4175971 | 604.3.1.43 ↗ | alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › FliX | 0.61 | 48.0 | 4.09e-01 | 88.7% | 58.9% |
| 3181755 | 2004.1.1.45 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MutS_V | 0.61 | 50.0 | 3.23e-01 | 100.0% | 51.9% |
| 1106555 | 3812.1.1.1 ↗ | alpha bundles › Type III secretion protein YscE › Type III secretion protein YscE › Type III secretion protein YscE › T3SS_needle_E | 0.58 | 43.0 | 4.08e-01 | 83.0% | 71.2% |
| 3779543 | 210.2.1.1 ↗ | a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain › PP2C | 0.55 | 42.0 | 2.56e-01 | 83.0% | 21.8% |
| 4569385 | 377.1.1.2 ↗ | few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › Ribosomal_S14 | 0.55 | 38.0 | 3.22e-01 | 75.5% | 59.2% |
| 3779711 | 192.8.1.0 ↗ | alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain | 0.55 | 40.0 | 2.47e-01 | 84.9% | 49.3% |
| 3988430 | 633.2.1.1 ↗ | alpha bundles › Bromodomain-like › Carnobacteriocin B2 immunity protein › Carnobacteriocin B2 immunity protein › EntA_Immun | 0.53 | 45.0 | 3.78e-01 | 100.0% | 86.3% |