Research workbench
Structure of the human mitochondrial transcription initiation complex at the lsp promoter
Analyse Structure of the human mitochondrial transcription initiation complex at the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6ERP
- Type
- protein + DNA
- Length
- 3,156 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription factor a, mitochondrial; Non-template DNA; Template DNA; DNA-directed RNA…
- EC
- 2.7.7.6, 2.1.1.-
- UniProt
- Q00059, O00411, Q9H5Q4
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 6 distinct chains · 58% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, G | Transcription factor a, mitochondrial | protein | 192 | 74% helix, 0% strand | Q00059 |
| D, H | Non-template DNA | dna | 46 | — | — |
| E, I | Template DNA | dna | 45 | — | — |
| A | DNA-directed RNA polymerase, mitochondrial (EC 2.7.7.6) | protein | 1011 | 58% helix, 9% strand | O00411 |
| B | DNA-directed RNA polymerase, mitochondrial (EC 2.7.7.6) | protein | 1003 | 58% helix, 8% strand | O00411 |
| F, J | Dimethyladenosine transferase 2, mitochondrial (EC 2.1.1.-) | protein | 288 | 44% helix, 16% strand | Q9H5Q4 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1029 | 0.81 | 0.82 | 97 | empty |
| 2 | 732 | 0.79 | 0.83 | 79 | empty |
| 3 | 643 | 0.78 | 0.84 | 69 | empty |
| 4 | 873 | 0.77 | 0.80 | 85 | empty |
| 5 | 919 | 0.77 | 0.80 | 79 | empty |
Interfaces
20 interfaces between chains.
- H–I · 1920 Ų buried · 130 hydrogen bonds · nucleic-nucleic
- D–E · 1883 Ų buried · 130 hydrogen bonds · nucleic-nucleic
- G–I · 1372 Ų buried · 21 hydrogen bonds · protein-nucleic
- C–E · 1330 Ų buried · 14 hydrogen bonds · protein-nucleic
- G–H · 1257 Ų buried · 19 hydrogen bonds · protein-nucleic
Compared structures
- 6ERP · Structure of the human mitochondrial transcription initiation complex at the LSP promoter · the same entry in another collection · chain J against J, TM-score 1.00
- Q9H5Q4 · AlphaFold monomer V2.0 prediction for dimethyladenosine transferase 2, mitochondrial… · a predicted model of the same protein · chain F against A, TM-score 0.99
- 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 0.96
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 Q00059
- Every structure of UniProt O00411
- Every structure of UniProt Q9H5Q4
- Elsewhere: RCSB PDB 6ERP · PDBe 6ERP · UniProt Q00059 · UniProt O00411 · UniProt Q9H5Q4
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