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Structure of mitochondrial RNA polymerase elongation complex
Analyse Structure of mitochondrial RNA polymerase elongation complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4BOC
- Type
- protein + DNA + RNA
- Length
- 1,046 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA-directed RNA polymerase, mitochondrial; 5'-D(*CP*AP*TP*GP*GP*GP*GP*TP*AP*AP*TP*TP*AP*T…
- EC
- 2.7.7.6
- UniProt
- O00411
- Pockets
- 17 · best druggability 0.82
Structure
x-ray diffraction · 4 distinct chains · 59% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA-directed RNA polymerase, mitochondrial (EC 2.7.7.6) | protein | 989 | 59% helix, 9% strand | O00411 |
| N | 5'-D(*CP*AP*TP*GP*GP*GP*GP*TP*AP*AP*TP*TP*AP*TP *TP*TP*CP*GP*AP*CP*GP*CP*CP*AP*GP*AP*CP*G)-3' | dna | 21 | — | — |
| R | 5'-R(*AP*GP*UP*CP*UP*GP*CP*GP*GP*CP*GP*CP*GP*CP)-3' | rna | 9 | — | — |
| T | 5'-D(*CP*GP*TP*CP*TP*GP*GP*CP*GP*TP*GP*CP*GP*CP *GP*CP*CP*GP*CP*TP*AP*CP*CP*CP*CP*AP*TP*G)-3' | dna | 27 | — | — |
Pockets
17 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 787 | 0.82 | 0.85 | 64 | empty |
| 2 | 692 | 0.81 | 0.85 | 59 | empty |
| 3 | 627 | 0.78 | 0.84 | 46 | empty |
| 4 | 895 | 0.77 | 0.81 | 73 | empty |
| 5 | 245 | 0.74 | 0.88 | 41 | empty |
Interfaces
5 interfaces between chains.
- A–T · 1422 Ų buried · 20 hydrogen bonds · protein-nucleic
- A–R · 887 Ų buried · 14 hydrogen bonds · protein-nucleic
- N–T · 833 Ų buried · 90 hydrogen bonds · nucleic-nucleic
- A–N · 490 Ų buried · 3 hydrogen bonds · protein-nucleic
- R–T · 454 Ų buried · 48 hydrogen bonds · nucleic-nucleic
Compared structures
- 4BOC · Structure of mitochondrial RNA polymerase elongation complex · the same entry in another collection · chain A against A, TM-score 1.00
- O00411 · AlphaFold monomer V2.0 prediction for DNA-directed RNA polymerase, mitochondrial (O00411) · a predicted model of the same protein · chain A against A, TM-score 0.99
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt O00411
- Elsewhere: RCSB PDB 4BOC · PDBe 4BOC · UniProt O00411
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