Research workbench
Caulobacter crescentus gcra sigma-interacting domain (sid) in complex with domain 2 of sigma 70
Analyse Caulobacter crescentus gcra sigma-interacting domain (sid) in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5YIX
- Type
- protein
- Length
- 372 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA polymerase sigma factor rpod; Cell cycle regulatory protein gcra
- UniProt
- A0A0H3CAV3, A0A0H3C9J4
- Ligands
- ZN
- Pockets
- 3 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 71% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA polymerase sigma factor rpod | protein | 324 | 80% helix, 1% strand | A0A0H3CAV3 |
| B | Cell cycle regulatory protein gcra | protein | 48 | 15% helix, 17% strand | A0A0H3C9J4 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 347 | 0.71 | 0.83 | 52 | empty |
| 2 | 119 | 0.54 | 0.82 | 14 | empty |
| 3 | 215 | 0.51 | 0.76 | 34 | empty |
Interfaces
1 interface between chains.
- A–B · 819 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 5YIX · Caulobacter crescentus GcrA sigma-interacting domain (SID) in complex with domain 2 of… · 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 A0A0H3CAV3
- Every structure of UniProt A0A0H3C9J4
- Elsewhere: RCSB PDB 5YIX · PDBe 5YIX · UniProt A0A0H3CAV3 · UniProt A0A0H3C9J4
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