Research workbench
Periplasmic heme-binding protein bhut in apo form
Analyse Periplasmic heme-binding protein bhut in apo form in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5GIZ
- Type
- protein
- Length
- 539 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative hemin transport system, substrate-binding protein
- UniProt
- B4EKB3
- Ligands
- SO4, CL
- Pockets
- 5 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 45% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative hemin transport system, substrate-binding protein | protein | 271 | 45% helix, 21% strand | B4EKB3 |
| B | Putative hemin transport system, substrate-binding protein | protein | 268 | 45% helix, 20% strand | B4EKB3 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1006 | 0.79 | 0.80 | 84 | CL |
| 2 | 274 | 0.59 | 0.79 | 28 | empty |
| 3 | 90 | 0.58 | 0.87 | 18 | CL |
| 4 | 319 | 0.56 | 0.76 | 29 | empty |
| 5 | 60 | 0.33 | 0.77 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 882 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 5GIZ · Periplasmic heme-binding protein BhuT in apo form · 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 B4EKB3
- Elsewhere: RCSB PDB 5GIZ · PDBe 5GIZ · UniProt B4EKB3
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