Research workbench
Burg (holo) in complex with (Z)-2,3-dihydroxy-6-methyl-hept-2-enoate (13): biosynthesis of cyclopropanol rings in bacterial toxins
Analyse Burg (holo) in complex with (Z)-2,3-dihydroxy-6-methyl-hept-2-enoate (13)… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7PCM
- Type
- protein
- Length
- 681 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ketol-acid reductoisomerase
- EC
- 1.1.1.86
- UniProt
- Q2T3G7
- Ligands
- NAI, 7I3, MG, NA
- Pockets
- 4 · best druggability 0.78
Structure
x-ray diffraction · 2 distinct chains · 57% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ketol-acid reductoisomerase (EC 1.1.1.86) | protein | 340 | 57% helix, 11% strand | Q2T3G7 |
| B | Ketol-acid reductoisomerase (EC 1.1.1.86) | protein | 341 | 57% helix, 11% strand | Q2T3G7 |
Ligands and binding sites
- NAI · 1,4-dihydronicotinamide adenine dinucleotide · ligand · 2 copies · chains A, B
- 7I3 · (Z)-6-methyl-2,3-bis(oxidanyl)hept-2-enoic acid · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 4 copies · chains A, B
- NA · Sodium ion · metal · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 555 | 0.78 | 0.84 | 64 | NAI, MG, 7I3 |
| 2 | 572 | 0.77 | 0.84 | 66 | 7I3, NAI, MG |
| 3 | 624 | 0.71 | 0.79 | 42 | empty |
| 4 | 51 | 0.28 | 0.75 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 6561 Ų buried · 83 hydrogen bonds · protein-protein
Compared structures
- 7PCM · BurG (holo) in complex with (Z)-2,3-dihydroxy-6-methyl-hept-2-enoate (13): Biosynthesis… · 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 Q2T3G7
- Elsewhere: RCSB PDB 7PCM · PDBe 7PCM · UniProt Q2T3G7
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