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DNA-directed_RNA_polymerase_subunit_alpha
Euk-VirMarseillevirus_marseillevirus
DNA-directed_RNA_polymerase_subunit_alpha__YP_003406803__Marseillevirus_marseillevirus__694581
Identity
- Accession:
- YP_003406803 ↗
- Protein ID:
- DNA-directed_RNA_polymerase_subunit_alpha
- Kingdom:
- euk
Quality
71.1
mean pLDDT
Taxonomy
Bamfordvirae›
Nucleocytoviricota›
Megaviricetes›
Pimascovirales›
Marseilleviridae›
Marseillevirus›
Marseillevirus_marseillevirus
TaxID: 694581
Cluster
View cluster (8 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 138-202_231-242
Domain cluster:
representative
CATH (5)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1j20A02 | 3.90.1260.10 | Alpha Beta › Alpha-Beta Complex › Argininosuccinate synthetase, chain A, domain 2 › Argininosuccinate synthetase, chain A, domain 2 | 0.57 | 41.0 | 3.03e-01 | 76.6% | 95.8% |
| 4r8oA00 | 2.40.128.720 | Mainly Beta › Beta Barrel › Lipocalin › | 0.53 | 36.0 | 3.42e-01 | 72.7% | 90.8% |
| 3kxeA00 | 3.30.2310.20 | Alpha Beta › 2-Layer Sandwich › YaeB-like fold › RelE-like | 0.51 | 32.0 | 3.02e-01 | 74.0% | 48.9% |
| 5cegD00 | 3.30.2310.20 | Alpha Beta › 2-Layer Sandwich › YaeB-like fold › RelE-like | 0.51 | 34.0 | 3.14e-01 | 88.3% | 51.5% |
| 4nhxA01 | 2.60.120.620 | Mainly Beta › Sandwich › Jelly Rolls › q2cbj1_9rhob like domain | 0.50 | 38.0 | 2.86e-01 | 84.4% | 65.8% |
ECOD (4)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5031337 | 375.8.1.1 ↗ | few secondary structure elements › Rubredoxin-like › Zinc-binding domain of translation initiation factor 2 beta › Zinc-binding domain of translation initiation factor 2 beta › eIF-5_eIF-2B | 0.64 | 28.0 | 3.70e-01 | 75.3% | 74.4% |
| 4381748 | 241.1.1.2 ↗ | a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone › Autophagy_act_C | 0.54 | 46.0 | 3.46e-01 | 100.0% | 87.9% |
| 1291229 | 101.1.2.194 ↗ | alpha arrays › HTH › HTH › winged helix domain › RIOX1_C_WH | 0.52 | 37.0 | 3.13e-01 | 76.6% | 72.7% |
| 1712440 | 4312.1.1.3 ↗ | a+b two layers › RelE-like › RelE-like › RelE-like › ParE_toxin | 0.51 | 34.0 | 3.15e-01 | 88.3% | 50.5% |
D2
medium
residues 272-293_307-365
Domain cluster:
representative
CATH (13)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2pvqA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.69 | 45.0 | 4.07e-01 | 87.7% | 50.9% |
| 2yxhA00 | 1.10.287.1080 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like | 0.65 | 39.0 | 3.51e-01 | 82.7% | 41.6% |
| 2imiB02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.65 | 43.0 | 3.59e-01 | 86.4% | 40.0% |
| 4mk3A02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.64 | 42.0 | 3.78e-01 | 90.1% | 47.8% |
| 4gltA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.64 | 44.0 | 3.95e-01 | 86.4% | 51.8% |
| 8g0lB01 | 1.25.40.1040 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.63 | 37.0 | 2.34e-01 | 72.8% | 12.1% |
| 3anwA01 | 1.20.58.1030 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.63 | 55.0 | 4.88e-01 | 95.1% | 72.6% |
| 5l0wB01 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.63 | 36.0 | 3.06e-01 | 74.1% | 32.6% |
| 1p5zB00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.62 | 41.0 | 2.96e-01 | 88.9% | 23.6% |
| 2e9xA01 | 1.20.58.1030 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.60 | 50.0 | 4.34e-01 | 92.6% | 70.3% |
| 3ug9A02 | 1.20.1070.10 | Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins | 0.60 | 42.0 | 3.04e-01 | 98.8% | 26.2% |
| 3sqiA01 | 1.10.150.540 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › | 0.53 | 31.0 | 2.92e-01 | 74.1% | 44.4% |
| 1i51B00 | 3.30.70.1470 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Caspase-like | 0.51 | 32.0 | 3.09e-01 | 90.1% | 55.4% |
ECOD (15)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3533047 | 109.4.1.1324 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › P4Ha_N, TPR_P4H | 0.73 | 39.0 | 2.83e-01 | 80.2% | 21.0% |
| 4933335 | 604.12.1.1 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT | 0.71 | 45.0 | 4.60e-01 | 91.4% | 66.3% |
| 3960865 | 604.12.1.21 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › DUF3017 | 0.70 | 41.0 | 4.12e-01 | 80.2% | 56.5% |
| 3203288 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.69 | 39.0 | 4.21e-01 | 85.2% | 64.3% |
| 3615590 | 603.1.1.0 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins | 0.65 | 46.0 | 4.11e-01 | 97.5% | 50.8% |
| 3290838 | 192.29.1.0 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) | 0.64 | 39.0 | 3.44e-01 | 75.3% | 42.6% |
| 3827442 | 605.1.1.0 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase | 0.63 | 37.0 | 3.83e-01 | 88.9% | 61.3% |
| 3727265 | 2004.1.1.30 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C | 0.62 | 46.0 | 3.16e-01 | 76.5% | 37.8% |
| 293479 | 109.1.1.7 ↗ | alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › GST_C_3 | 0.61 | 36.0 | 3.20e-01 | 87.7% | 40.0% |
| 3193797 | 109.24.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › Helical domain in dedicator of cytokinesis protein 9 › Helical domain in dedicator of cytokinesis protein 9 | 0.59 | 43.0 | 3.73e-01 | 86.4% | 51.7% |
| 3592536 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.57 | 41.0 | 3.02e-01 | 76.5% | 28.4% |
| 4001599 | 109.3.1.2 ↗ | alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank,Ank_2 | 0.54 | 34.0 | 2.42e-01 | 81.5% | 19.2% |
| 3532664 | 3755.3.1.391 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › USHBP1_PDZ-bd | 0.52 | 43.0 | 3.57e-01 | 90.1% | 62.1% |
| 3208854 | 2004.1.1.430 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran, ABC_tran_Xtn | 0.51 | 44.0 | 2.62e-01 | 97.5% | 41.6% |
| 3280303 | 3684.1.1.0 ↗ | alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like | 0.50 | 44.0 | 3.84e-01 | 100.0% | 88.0% |
D3
medium
residues 367-487
Domain cluster:
rep: DNA-directed_RNA_polymerase_subunit_alpha__YP_009238536__Brazilian_marseillevirus__1813599__D353-470
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00623.26 best | RNA_pol_Rpb1_2 | 61.4 | 1.80e-16 | 100.0% | 75.9% |