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2a_protein
Euk-VirGayfeather_mild_mottle_virus
2a_protein__YP_002640501__Gayfeather_mild_mottle_virus__578305
Identity
- Accession:
- YP_002640501 ↗
- Protein ID:
- 2a_protein
- Kingdom:
- euk
Quality
70.4
mean pLDDT
Taxonomy
Orthornavirae›
Kitrinoviricota›
Alsuviricetes›
Martellivirales›
Bromoviridae›
Cucumovirus›
Gayfeather_mild_mottle_virus
TaxID: 578305
Cluster
View cluster (23 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 86-165_196-209_251-282
D2
medium
residues 283-311_333-372
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00978.27 best | RdRP_2 | 39.4 | 4.90e-10 | 89.9% | 10.0% |
D3
medium
residues 373-490_519-591
Domain cluster:
rep: hypothetical_protein_3__YP_009345007__Wuhan_spider_virus_8__1923757__D1-105_147-200
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00978.27 best | RdRP_2 | 110.1 | 1.70e-31 | 62.8% | 27.7% |
| PF00978.27 | RdRP_2 | 116.9 | 1.50e-33 | 38.7% | 16.6% |
D4
medium
residues 592-647
Domain cluster:
rep: ORF1b__YP_001816770__Bean_yellow_disorder_virus__267970__D369-420
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00978.27 best | RdRP_2 | 67.2 | 1.90e-18 | 100.0% | 12.5% |
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3ipjA01 | 3.30.1360.60 | Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Glucose permease domain IIB | 0.61 | 49.0 | 4.52e-01 | 98.2% | 68.8% |
| 2zueA01 | 3.30.1360.70 | Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Arginyl tRNA synthetase N-terminal domain | 0.59 | 46.0 | 3.83e-01 | 92.9% | 65.2% |
| 1pu1A00 | 3.30.300.100 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › MTH677-like | 0.56 | 40.0 | 3.53e-01 | 78.6% | 60.4% |
| 3optA01 | 2.60.120.650 | Mainly Beta › Sandwich › Jelly Rolls › Cupin | 0.52 | 38.0 | 2.59e-01 | 87.5% | 72.4% |
| 4bv4R00 | 3.80.10.10 | Alpha Beta › Alpha-Beta Horseshoe › Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) › Ribonuclease Inhibitor | 0.50 | 40.0 | 2.42e-01 | 92.9% | 17.3% |
| 4omfB02 | 3.10.450.750 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › | 0.50 | 34.0 | 3.70e-01 | 82.1% | 83.0% |
ECOD (15)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3410849 | 304.9.1.0 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD | 0.66 | 53.0 | 4.31e-01 | 92.9% | 56.5% |
| 3587174 | 306.1.1.1 ↗ | a+b two layers › Glucose permease domain IIB-like › Glucose permease domain IIB › Glucose permease domain IIB › PTS_EIIB | 0.65 | 53.0 | 4.75e-01 | 96.4% | 63.5% |
| 4034042 | 306.1.1.1 ↗ | a+b two layers › Glucose permease domain IIB-like › Glucose permease domain IIB › Glucose permease domain IIB › PTS_EIIB | 0.64 | 53.0 | 4.73e-01 | 98.2% | 65.9% |
| 4973375 | 1075.1.2.0 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain | 0.63 | 48.0 | 3.05e-01 | 85.7% | 16.2% |
| 4032926 | 306.1.1.0 ↗ | a+b two layers › Glucose permease domain IIB-like › Glucose permease domain IIB › Glucose permease domain IIB | 0.62 | 53.0 | 4.64e-01 | 98.2% | 70.6% |
| 3973095 | 306.1.1.0 ↗ | a+b two layers › Glucose permease domain IIB-like › Glucose permease domain IIB › Glucose permease domain IIB | 0.60 | 49.0 | 4.59e-01 | 98.2% | 76.0% |
| 3301018 | 304.3.1.0 ↗ | a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain | 0.59 | 47.0 | 4.80e-01 | 94.6% | 96.4% |
| 3645644 | 206.1.1.20 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › PK_Tyr_Ser-Thr | 0.56 | 40.0 | 2.73e-01 | 76.8% | 54.5% |
| 4678749 | 306.1.1.0 ↗ | a+b two layers › Glucose permease domain IIB-like › Glucose permease domain IIB › Glucose permease domain IIB | 0.55 | 43.0 | 4.16e-01 | 96.4% | 78.5% |
| 3676541 | 3016.1.1.0 ↗ | a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases | 0.55 | 45.0 | 3.61e-01 | 91.1% | 53.1% |
| 2719199 | 10.2.1.17 ↗ | beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Adeno_hexon | 0.54 | 40.0 | 2.51e-01 | 82.1% | 65.9% |
| 4639076 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.53 | 37.0 | 3.22e-01 | 75.0% | 69.5% |
| 4810374 | 3740.1.1.1 ↗ | alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_N,FrhB_FdhB_C | 0.53 | 42.0 | 2.87e-01 | 96.4% | 92.3% |
| 5028765 | 601.7.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain | 0.53 | 36.0 | 2.69e-01 | 71.4% | 70.0% |
| 4992892 | 3740.1.1.4 ↗ | alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_C | 0.50 | 42.0 | 2.78e-01 | 98.2% | 71.9% |
D5
medium
residues 648-746
Domain cluster:
rep: 2a_protein__YP_009551509__Sambucus_virus_S__2052851__D633-716
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00978.27 best | RdRP_2 | 65.3 | 7.20e-18 | 100.0% | 20.4% |