MolNFT v1 · #153854 · protein
Crystal structure of heme binding protein htab from corynebacterium glutamicum
6JSB · Hypothetical membrane protein: “Crystal structure of heme binding protein htab from corynebacterium glutamicum”. X-ray diffraction, 2 ligands (HEM, CA), 4 pockets (best druggability 0.55). MolNFT v1 #153854 on GenesisL1: 3D…
- PDB
- 6JSB
- Type
- protein
- Length
- 397 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical membrane protein
- UniProt
- Q8NTB5
- Ligands
- HEM, CA
- Pockets
- 4 · best druggability 0.55
Structure
x-ray diffraction · 2 distinct chains · 13% helix, 54% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hypothetical membrane protein | protein | 199 | 13% helix, 54% strand | Q8NTB5 |
| B | Hypothetical membrane protein | protein | 198 | 13% helix, 54% strand | Q8NTB5 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 2 copies · chains A, B
- CA · Calcium ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 110 | 0.55 | 0.83 | 19 | HEM |
| 2 | 109 | 0.55 | 0.83 | 20 | HEM |
| 3 | 89 | 0.40 | 0.78 | 15 | empty |
| 4 | 91 | 0.37 | 0.75 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 341 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6JSB · Crystal structure of Heme binding protein HtaB from Corynebacterium glutamicum · 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 Q8NTB5
- Elsewhere: RCSB PDB 6JSB · PDBe 6JSB · UniProt Q8NTB5
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