Research workbench
Crystal structure of helicobacter cinaedi caip
Analyse Crystal structure of helicobacter cinaedi caip in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5LBH
- Type
- protein
- Length
- 1,716 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Caip
- Ligands
- FE
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 1 distinct chain · 79% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L | Caip | protein | 143 | 79% helix, 3% strand | — |
Ligands and binding sites
- FE · Fe (III) ion · metal · 12 copies · chains A, J, B, E, C, I, D, G, F, L, H, K
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1057 | 0.81 | 0.82 | 82 | empty |
| 2 | 1080 | 0.81 | 0.82 | 87 | empty |
| 3 | 1114 | 0.79 | 0.80 | 95 | empty |
| 4 | 1179 | 0.79 | 0.80 | 100 | empty |
| 5 | 606 | 0.67 | 0.77 | 58 | empty |
Interfaces
30 interfaces between chains.
- F–L · 1282 Ų buried · 8 hydrogen bonds · protein-protein
- A–J · 1275 Ų buried · 10 hydrogen bonds · protein-protein
- C–I · 1274 Ų buried · 8 hydrogen bonds · protein-protein
- D–G · 1249 Ų buried · 8 hydrogen bonds · protein-protein
- H–K · 1241 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 5LBH · Crystal structure of Helicobacter cinaedi CAIP · 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
- Elsewhere: RCSB PDB 5LBH · PDBe 5LBH
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