Research workbench
Crystal structure of sugar transporter RHE_PF00321 from rhizobium etli, target efi-510806, an open conformation
Analyse Crystal structure of sugar transporter RHE_PF00321 from rhizobium etli, target… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4RK2
- Type
- protein
- Length
- 793 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative sugar ABC transporter, substrate-binding protein
- UniProt
- Q2JYX5
- Ligands
- CL
- Pockets
- 5 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 45% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative sugar ABC transporter, substrate-binding protein | protein | 393 | 45% helix, 18% strand | Q2JYX5 |
| B | Putative sugar ABC transporter, substrate-binding protein | protein | 400 | 45% helix, 18% strand | Q2JYX5 |
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, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 692 | 0.70 | 0.77 | 67 | empty |
| 2 | 283 | 0.54 | 0.76 | 32 | CL |
| 3 | 239 | 0.52 | 0.76 | 37 | empty |
| 4 | 198 | 0.48 | 0.75 | 27 | empty |
| 5 | 50 | 0.29 | 0.76 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 282 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 4RK2 · Crystal structure of sugar transporter RHE_PF00321 from Rhizobium etli, target… · 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 Q2JYX5
- Elsewhere: RCSB PDB 4RK2 · PDBe 4RK2 · UniProt Q2JYX5
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