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DNA-directed_RNA_polymerase_subunit_alpha
Euk-VirBrazilian_marseillevirus
DNA-directed_RNA_polymerase_subunit_alpha__YP_009238535__Brazilian_marseillevirus__1813599
Identity
- Accession:
- YP_009238535 ↗
- Protein ID:
- DNA-directed_RNA_polymerase_subunit_alpha
- Kingdom:
- euk
Quality
72.8
mean pLDDT
Taxonomy
Bamfordvirae›
Nucleocytoviricota›
Megaviricetes›
Pimascovirales›
Marseilleviridae›
Marseillevirus›
Brazilian_marseillevirus
TaxID: 1813599
Cluster
View cluster (7 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 45-130_171-254
Domain cluster:
rep: DNA-directed_RNA_polymerase_subunit_alpha__YP_009094548__Melbournevirus__1560514__D74-162_215-266
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF04983.24 best | RNA_pol_Rpb1_3 | 57.2 | 2.80e-15 | 100.0% | 92.0% |
D2
medium
residues 261-343
D3
medium
residues 344-429
Domain cluster:
representative
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05000.23 best | RNA_pol_Rpb1_4 | 28.5 | 1.70e-06 | 52.3% | 40.2% |
| PF04998.23 | RNA_pol_Rpb1_5 | 54.4 | 1.80e-14 | 40.7% | 13.1% |
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3zq5A03 | 3.30.450.270 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain | 0.56 | 42.0 | 3.46e-01 | 79.1% | 85.0% |
| 3bfmA01 | 3.30.930.10 | Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 | 0.52 | 40.0 | 3.19e-01 | 83.7% | 92.7% |
| 6s6yD01 | 3.30.70.520 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.50 | 37.0 | 3.09e-01 | 79.1% | 80.3% |
ECOD (41)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3583849 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.92 | 86.0 | 6.02e-01 | 100.0% | 36.2% |
| 3938779 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.92 | 86.0 | 6.21e-01 | 100.0% | 40.5% |
| 3784119 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.92 | 86.0 | 5.47e-01 | 100.0% | 24.3% |
| 3711496 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.91 | 85.0 | 6.13e-01 | 100.0% | 39.5% |
| 3907707 | 4958.1.1.2 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_4 | 0.91 | 85.0 | 5.32e-01 | 100.0% | 21.8% |
| 4932735 | 4958.1.1.2 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_4 | 0.91 | 85.0 | 6.36e-01 | 100.0% | 44.7% |
| 3596868 | 4958.1.1.0 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit | 0.91 | 84.0 | 5.15e-01 | 100.0% | 18.9% |
| 5049548 | 4958.1.1.4 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.90 | 84.0 | 5.97e-01 | 100.0% | 37.0% |
| 4877205 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.90 | 85.0 | 6.20e-01 | 100.0% | 41.1% |
| 5031555 | 4958.1.1.2 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_4 | 0.90 | 80.0 | 5.31e-01 | 100.0% | 27.6% |
| 5028612 | 4958.1.1.4 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.90 | 84.0 | 6.03e-01 | 100.0% | 38.6% |
| 5023529 | 4958.1.1.4 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.90 | 85.0 | 5.94e-01 | 100.0% | 42.1% |
| 4943462 | 4958.1.1.4 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5 | 0.90 | 84.0 | 5.93e-01 | 100.0% | 37.0% |
| 4809195 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.90 | 84.0 | 7.00e-01 | 100.0% | 62.5% |
| 5063898 | 4958.1.1.2 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_4 | 0.89 | 83.0 | 5.89e-01 | 100.0% | 37.0% |
| None | — | 0.89 | 82.0 | 6.02e-01 | 100.0% | 40.7% | |
| 5081035 | 4958.1.1.0 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit | 0.89 | 82.0 | 5.81e-01 | 100.0% | 36.2% |
| 4966695 | 4958.1.1.0 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit | 0.89 | 82.0 | 5.95e-01 | 100.0% | 39.5% |
| 4642508 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.88 | 64.0 | 4.37e-01 | 100.0% | 25.1% |
| 3821041 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.88 | 82.0 | 5.76e-01 | 100.0% | 36.2% |
| 4887310 | 4958.1.1.2 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_4 | 0.88 | 81.0 | 6.00e-01 | 100.0% | 41.9% |
| 3360995 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.88 | 74.0 | 5.00e-01 | 100.0% | 27.6% |
| 4015744 | 4958.1.1.0 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit | 0.87 | 81.0 | 5.73e-01 | 100.0% | 37.0% |
| 2629809 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.86 | 79.0 | 5.58e-01 | 100.0% | 35.7% |
| 4298800 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.85 | 62.0 | 4.32e-01 | 100.0% | 26.5% |
| 3959563 | 4958.1.1.0 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit | 0.84 | 61.0 | 4.33e-01 | 100.0% | 27.7% |
| 4139172 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.84 | 61.0 | 4.20e-01 | 100.0% | 25.0% |
| 4886353 | 4958.1.1.2 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_4 | 0.83 | 60.0 | 4.78e-01 | 100.0% | 40.6% |
| None | — | 0.82 | 51.0 | 4.29e-01 | 88.4% | 39.3% | |
| 3835577 | 4958.1.1.0 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit | 0.75 | 70.0 | 5.18e-01 | 100.0% | 43.4% |
| 3664992 | 4958.1.1.0 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit | 0.75 | 70.0 | 5.20e-01 | 100.0% | 46.5% |
| 3676029 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.72 | 66.0 | 4.59e-01 | 100.0% | 35.8% |
| 4360452 | 4958.1.1.1 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 | 0.71 | 60.0 | 4.67e-01 | 100.0% | 44.6% |
| 3346948 | 4958.1.1.2 ↗ | a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_4 | 0.70 | 65.0 | 4.56e-01 | 100.0% | 39.2% |
| 4353391 | 223.1.1.0 ↗ | a+b three layers › Profilin-like › sensor domains › sensor domains | 0.61 | 46.0 | 2.75e-01 | 80.2% | 28.9% |
| 3278913 | 5067.1.1.4 ↗ | alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › MMPL | 0.53 | 44.0 | 2.64e-01 | 96.5% | 74.1% |
| 3998597 | 633.23.1.0 ↗ | alpha bundles › Bromodomain-like › Claudin › Claudin | 0.52 | 40.0 | 3.19e-01 | 84.9% | 47.6% |
| 3949228 | 7523.1.1.15 ↗ | a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › LysR_substrate | 0.52 | 37.0 | 3.36e-01 | 74.4% | 90.4% |
| 3970698 | 3747.1.1.0 ↗ | a+b two layers › Flagellar hook protein FlgE D0 domain › Flagellar hook protein FlgE D0 domain › Flagellar hook protein FlgE D0 domain | 0.51 | 41.0 | 3.82e-01 | 86.0% | 84.8% |
| 3716374 | 207.4.1.1 ↗ | beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › C-CAP/cofactor C-like › C-CAP/cofactor C-like › TBCC | 0.51 | 45.0 | 3.28e-01 | 96.5% | 42.2% |
| 3753305 | 3016.1.1.22 ↗ | 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 › PDXDC1-like_cen2 | 0.50 | 38.0 | 3.57e-01 | 82.6% | 92.7% |
D4
medium
residues 950-1003