Research workbench
Prtd T1SS ABC transporter
Analyse Prtd T1SS ABC transporter in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5L22
- Type
- protein
- Length
- 1,079 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ABC transporter (hlyb subfamily)
- UniProt
- O67184
- Ligands
- ADP, MG
- Pockets
- 17 · best druggability 0.90
Structure
x-ray diffraction · 2 distinct chains · 63% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | ABC transporter (hlyb subfamily) | protein | 540 | 64% helix, 11% strand | O67184 |
| A | ABC transporter (hlyb subfamily) | protein | 539 | 63% helix, 11% strand | O67184 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · 2 copies · chains B, A
- MG · Magnesium ion · metal · 2 copies · chains B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 953 | 0.90 | 0.92 | 120 | empty |
| 2 | 1128 | 0.87 | 0.88 | 113 | ADP, MG |
| 3 | 307 | 0.63 | 0.80 | 41 | empty |
| 4 | 80 | 0.61 | 0.89 | 19 | empty |
| 5 | 262 | 0.59 | 0.78 | 26 | empty |
Interfaces
1 interface between chains.
- B–A · 6971 Ų buried · 65 hydrogen bonds · protein-protein
Compared structures
- 5L22 · PrtD T1SS ABC transporter · the same entry in another collection · chain B against B, 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 O67184
- Elsewhere: RCSB PDB 5L22 · PDBe 5L22 · UniProt O67184
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