Research workbench
T7 RNA polymerase complexed with a PHI10 promoter
Analyse T7 RNA polymerase complexed with a PHI10 promoter in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2PI5
- Type
- protein + DNA
- Length
- 894 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'- D(*CP*TP*TP*C*CP*TP*AP*TP*AP*GP*TP*GP*AP*GP*TP*CP*GP*TP*AP* TP*TP*A)-3'…
- EC
- 2.7.7.6
- UniProt
- P00573
- Pockets
- 14 · best druggability 0.81
Structure
x-ray diffraction · 3 distinct chains · 50% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| T | 5'- D(*CP*TP*TP*C*CP*TP*AP*TP*AP*GP*TP*GP*AP*GP*TP*CP*GP*TP*AP* TP*TP*A)-3' | dna | 18 | — | — |
| P | 5'-D(*TP*AP*AP*TP*AP*CP*GP*AP*CP*TP*CP*AP*CP*T)- 3' | dna | 14 | — | — |
| A | DNA-directed RNA polymerase (EC 2.7.7.6) | protein | 862 | 50% helix, 9% strand | P00573 |
Pockets
14 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 915 | 0.81 | 0.83 | 70 | empty |
| 2 | 496 | 0.71 | 0.81 | 60 | empty |
| 3 | 263 | 0.70 | 0.85 | 31 | empty |
| 4 | 136 | 0.58 | 0.83 | 23 | empty |
| 5 | 135 | 0.52 | 0.81 | 22 | empty |
Interfaces
3 interfaces between chains.
- T–A · 1346 Ų buried · 27 hydrogen bonds · protein-nucleic
- P–A · 643 Ų buried · 10 hydrogen bonds · protein-nucleic
- T–P · 566 Ų buried · 40 hydrogen bonds · nucleic-nucleic
Compared structures
- 2PI5 · T7 RNA polymerase complexed with a phi10 promoter · the same entry in another collection · chain T against T, TM-score 1.00
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 P00573
- Elsewhere: RCSB PDB 2PI5 · PDBe 2PI5 · UniProt P00573
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