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NIb_protein
Euk-VirTomato_necrotic_stunt_virus
NIb_protein__YP_006280739__Tomato_necrotic_stunt_virus__1176153
Identity
- Accession:
- YP_006280739 ↗
- Protein ID:
- NIb_protein
- Kingdom:
- euk
Quality
90.4
mean pLDDT
Taxonomy
Orthornavirae›
Pisuviricota›
Stelpaviricetes›
Patatavirales›
Potyviridae›
Potyvirus›
Tomato_necrotic_stunt_virus
TaxID: 1176153
Cluster
View cluster (450 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 13-27_68-85_109-215_252-311
Domain cluster:
rep: NIb__YP_009221991__Jasmine_virus_T__1775963__D1-51_64-80_112-210_276-312
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00680.26 best | RdRP_1 | 77.5 | 1.30e-21 | 65.0% | 25.6% |
| PF00680.26 | RdRP_1 | 39.2 | 5.30e-10 | 31.5% | 13.3% |
D2
medium
residues 28-67_411-488
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00680.26 best | RdRP_1 | 26.6 | 3.60e-06 | 63.6% | 11.6% |
CATH (7)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2bvlA01 | 1.20.58.1190 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.59 | 41.0 | 4.61e-01 | 76.3% | 97.7% |
| 2dfkC01 | 1.20.900.10 | Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain | 0.58 | 49.0 | 4.05e-01 | 93.2% | 86.8% |
| 3h20A04 | 1.10.1240.50 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › | 0.55 | 36.0 | 4.07e-01 | 80.5% | 89.9% |
| 3fr3B02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.53 | 37.0 | 3.79e-01 | 72.0% | 84.3% |
| 6lcuA02 | 1.10.10.470 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Maltooligosyl trehalose synthase; domain 4 | 0.52 | 39.0 | 4.11e-01 | 79.7% | 90.5% |
| 1rz4A01 | 1.25.40.250 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › ARM repeat; domain 1 | 0.51 | 37.0 | 3.75e-01 | 76.3% | 90.0% |
| 2jswA00 | 1.20.1410.10 | Mainly Alpha › Up-down Bundle › I/LWEQ domain › I/LWEQ domain | 0.51 | 39.0 | 3.38e-01 | 82.2% | 86.2% |
ECOD (13)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5057633 | 3651.1.1.0 ↗ | alpha bundles › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain | 0.59 | 42.0 | 4.28e-01 | 98.3% | 75.7% |
| 3905322 | 633.1.1.0 ↗ | alpha bundles › Bromodomain-like › Bromodomain › Bromodomain | 0.59 | 48.0 | 4.84e-01 | 89.0% | 90.8% |
| 56778 | 150.3.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine | 0.58 | 44.0 | 4.44e-01 | 79.7% | 80.2% |
| 3706159 | 109.1.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C | 0.56 | 39.0 | 3.56e-01 | 72.0% | 85.6% |
| 4932048 | 3543.1.1.0 ↗ | alpha complex topology › Acid-activated urea channel › Acid-activated urea channel › Acid-activated urea channel | 0.55 | 40.0 | 3.53e-01 | 76.3% | 72.2% |
| 1878968 | 103.2.1.2 ↗ | alpha arrays › RuvA-C › ATP cone › ATP cone › ATP-cone | 0.55 | 41.0 | 4.35e-01 | 83.1% | 92.0% |
| 3270296 | 133.1.1.1 ↗ | alpha bundles › DH domain-like › DBL homology domain (DH-domain) › DBL homology domain (DH-domain) › RhoGEF | 0.54 | 44.0 | 3.58e-01 | 89.0% | 80.4% |
| 3975583 | 629.1.1.1 ↗ | alpha bundles › TorD-like (Pfam 06192) › TorD-like (Pfam 06192) › TorD-like (Pfam 06192) › Nitrate_red_del | 0.53 | 45.0 | 3.92e-01 | 93.2% | 92.4% |
| 3926112 | 601.1.1.60 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › Death_MADD | 0.53 | 41.0 | 4.03e-01 | 80.5% | 86.4% |
| 4981760 | 7516.1.1.51 ↗ | a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glyco_transf_21 | 0.52 | 45.0 | 3.26e-01 | 98.3% | 86.8% |
| 3623263 | 188.1.1.0 ↗ | alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain | 0.52 | 37.0 | 3.21e-01 | 72.9% | 68.9% |
| 3700629 | 633.15.1.1 ↗ | alpha bundles › Bromodomain-like › alpha-ketoacid dehydrogenase kinase-N › alpha-ketoacid dehydrogenase kinase-N › BCDHK_Adom3 | 0.52 | 42.0 | 3.62e-01 | 88.1% | 92.6% |
| 3727138 | 650.1.1.1 ↗ | alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain › DnaJ | 0.52 | 35.0 | 3.81e-01 | 92.4% | 85.3% |
D3
medium
residues 86-108_216-251_312-410
Domain cluster:
rep: hypothetical_protein_2__YP_009337040__Changjiang_tombus-like_virus_21__1922815__D1-47_99-181
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00680.26 best | RdRP_1 | 65.8 | 4.50e-18 | 64.6% | 22.9% |