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nucleocapsid
Euk-VirLaurel_Lake_virus
nucleocapsid__YP_009667030__Laurel_Lake_virus__2027354
Identity
- Accession:
- YP_009667030 ↗
- Protein ID:
- nucleocapsid
- Kingdom:
- euk
Quality
81.4
mean pLDDT
Taxonomy
Orthornavirae›
Negarnaviricota›
Bunyaviricetes›
Hareavirales›
Phenuiviridae›
Laulavirus›
Laurel_Lake_virus
TaxID: 2027354
Cluster
View cluster (83 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 33-126
Domain cluster:
rep: putative_nucleoprotein__YP_009330282__Hubei_diptera_virus_5__1922886__D214-314
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05733.17 best | Tenui_N | 37.8 | 2.20e-09 | 94.7% | 37.0% |
CATH (13)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1hekA00 | 1.10.150.90 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Immunodeficiency lentiviruses, gag gene matrix protein p17 | 0.62 | 44.0 | 4.14e-01 | 73.4% | 90.5% |
| 1xqoA01 | 1.10.1670.10 | Mainly Alpha › Orthogonal Bundle › Endonuclease Iii, domain 2 › Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal) | 0.59 | 38.0 | 3.52e-01 | 84.0% | 51.7% |
| 2x1dA02 | 1.10.10.2120 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.58 | 35.0 | 3.92e-01 | 94.7% | 77.0% |
| 2esnA01 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.57 | 45.0 | 4.66e-01 | 91.5% | 92.1% |
| 5z7qA00 | 1.20.1330.10 | Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain | 0.55 | 39.0 | 3.23e-01 | 75.5% | 68.2% |
| 5zyrA02 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.55 | 41.0 | 3.54e-01 | 79.8% | 51.0% |
| 3ed5A02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.54 | 42.0 | 4.39e-01 | 81.9% | 94.0% |
| 4dxwA02 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.52 | 38.0 | 3.65e-01 | 100.0% | 65.2% |
| 2copA00 | 1.20.80.10 | Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › | 0.52 | 33.0 | 3.16e-01 | 74.5% | 54.1% |
| 7odyC01 | 1.10.287.1080 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like | 0.51 | 33.0 | 3.39e-01 | 93.6% | 66.3% |
| 2om6A02 | 1.10.150.400 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › | 0.51 | 38.0 | 4.03e-01 | 78.7% | 94.9% |
| 1hbkA00 | 1.20.80.10 | Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › | 0.51 | 34.0 | 3.47e-01 | 77.7% | 70.8% |
| 1hbgA00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.50 | 41.0 | 3.61e-01 | 91.5% | 60.5% |
ECOD (13)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1007268 | 3143.1.2.1 ↗ | alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein › Tenui_N | 0.91 | 79.0 | 5.61e-01 | 100.0% | 34.7% |
| 1030601 | 3143.1.2.1 ↗ | alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein › Tenui_N | 0.89 | 80.0 | 5.68e-01 | 100.0% | 35.5% |
| 3820015 | 3143.1.2.1 ↗ | alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein › Tenui_N | 0.88 | 83.0 | 5.85e-01 | 100.0% | 37.6% |
| 3982095 | 101.1.3.4 ↗ | alpha arrays › HTH › HTH › tetra-helical, LuxR-like › HTH_30 | 0.63 | 50.0 | 5.00e-01 | 94.7% | 82.7% |
| 4426593 | 563.1.1.1 ↗ | alpha bundles › ATPD N-terminal domain-like › N-terminal domain of the delta subunit of the F1F0-ATP synthase › N-terminal domain of the delta subunit of the F1F0-ATP synthase › OSCP | 0.60 | 53.0 | 4.34e-01 | 96.8% | 80.0% |
| 4456963 | 563.1.1.1 ↗ | alpha bundles › ATPD N-terminal domain-like › N-terminal domain of the delta subunit of the F1F0-ATP synthase › N-terminal domain of the delta subunit of the F1F0-ATP synthase › OSCP | 0.57 | 49.0 | 4.02e-01 | 96.8% | 74.1% |
| 3219804 | 371.1.1.0 ↗ | few secondary structure elements › Phospholipase A2, PLA2 › Phospholipase A2, PLA2 › Phospholipase A2, PLA2 | 0.56 | 41.0 | 4.04e-01 | 77.7% | 89.5% |
| 3413790 | 197.1.1.3 ↗ | alpha bundles › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › ACBP | 0.54 | 34.0 | 3.61e-01 | 75.5% | 73.8% |
| 3688136 | 1188.1.1.1 ↗ | alpha bundles › ZIP zinc transporter › ZIP zinc transporter › ZIP zinc transporter › Zip | 0.54 | 38.0 | 3.04e-01 | 75.5% | 100.0% |
| 3232602 | 197.1.1.3 ↗ | alpha bundles › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › ACBP | 0.53 | 34.0 | 3.45e-01 | 74.5% | 66.7% |
| 3970030 | 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 | 0.52 | 40.0 | 3.12e-01 | 81.9% | 74.5% |
| 3294610 | 109.4.1.459 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › eIF3_p135 | 0.52 | 45.0 | 3.97e-01 | 100.0% | 77.9% |
| 3935579 | 197.1.1.3 ↗ | alpha bundles › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › ACBP | 0.50 | 36.0 | 3.57e-01 | 77.7% | 71.0% |
D2
high
residues 142-253
Domain cluster:
rep: nucleocapsid_protein__YP_010086239__Norway_phlebovirus_1__2034330__D328-441
CATH (4)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 7eptR01 | 1.20.1070.10 | Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins | 0.56 | 39.0 | 3.01e-01 | 70.5% | 63.0% |
| 3egoA02 | 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 | 0.55 | 48.0 | 4.78e-01 | 100.0% | 97.5% |
| 3vw7A01 | 1.20.1070.10 | Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins | 0.54 | 38.0 | 2.93e-01 | 73.2% | 76.6% |
| 6bl6B01 | 1.20.1560.10 | Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain | 0.52 | 44.0 | 3.22e-01 | 94.6% | 83.9% |
ECOD (4)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3379018 | 109.4.1.359 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Exo70_C | 0.61 | 43.0 | 2.79e-01 | 72.3% | 76.5% |
| 4306252 | 1075.4.1.1 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane | 0.55 | 46.0 | 3.38e-01 | 94.6% | 85.2% |
| 3270828 | 1075.4.1.1 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane | 0.52 | 44.0 | 3.22e-01 | 94.6% | 82.1% |
| 4672591 | 5059.1.1.2 ↗ | alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › Multi_Drug_Res | 0.50 | 40.0 | 3.98e-01 | 96.4% | 83.5% |