MolNFT v1 · #152311 · protein + DNA
Crystal structure of klebsiella pneumoniae SIGMA4 of sigmas fusing with the RNA polymerase beta-flap-tip-helix in complex with -35 element DNA
6IDO · RNA polymerase sigma factor RPOS,RNA polymerase beta-flap…: “Crystal structure of klebsiella pneumoniae SIGMA4 of sigmas fusing with the RNA polymerase…”. X-ray diffraction, 2 pockets (best druggability 0.52). MolNFT v1 #152311 on…
- PDB
- 6IDO
- Type
- protein + DNA
- Length
- 223 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA polymerase sigma factor RPOS,RNA polymerase beta-flap- tip-helix; DNA…
- UniProt
- Q9F8R5
- Pockets
- 2 · best druggability 0.52
Structure
x-ray diffraction · 4 distinct chains · 64% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA polymerase sigma factor RPOS,RNA polymerase beta-flap- tip-helix | protein | 86 | 62% helix, 0% strand | Q9F8R5 |
| C, E | DNA (5'-D(P*GP*AP*TP*TP*TP*GP*TP*CP*AP*AP*GP*TP*GP*GP*C)- 3') | dna | 15 | — | — |
| D, F | DNA (5'-D(P*CP*CP*AP*CP*TP*TP*GP*AP*CP*AP*AP*AP*TP*CP*G)- 3') | dna | 15 | — | — |
| B | RNA polymerase sigma factor RPOS,RNA polymerase beta-flap- tip-helix | protein | 77 | 66% helix, 0% strand | Q9F8R5 |
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 74 | 0.52 | 0.85 | 19 | empty |
| 2 | 65 | 0.36 | 0.77 | 17 | empty |
Interfaces
7 interfaces between chains.
- E–F · 654 Ų buried · 61 hydrogen bonds · nucleic-nucleic
- C–D · 653 Ų buried · 68 hydrogen bonds · nucleic-nucleic
- A–B · 535 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 357 Ų buried · 5 hydrogen bonds · protein-nucleic
- B–E · 353 Ų buried · 5 hydrogen bonds · protein-nucleic
Compared structures
- 6IDO · Crystal structure of Klebsiella pneumoniae sigma4 of sigmaS fusing with the RNA… · the same entry in another collection · chain A against A, 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 Q9F8R5
- Elsewhere: RCSB PDB 6IDO · PDBe 6IDO · UniProt Q9F8R5
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