Research workbench
Crystal structure of burkholderia pseudomallei D-alanine-D-alanine ligase in complex with AMP and D-ala-D-ala
Analyse Crystal structure of burkholderia pseudomallei D-alanine-D-alanine ligase in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5NRI
- Type
- protein
- Length
- 622 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- A3NZL3
- Ligands
- AMP, MG, SO4
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 313 | — | A3NZL3 |
| B | — | protein | 309 | — | A3NZL3 |
Ligands and binding sites
- AMP · Adenosine monophosphate · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · chains A
- SO4 · Sulfate ion · ion · 3 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 8 copies · chains A, B
- PGE · Triethylene glycol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5NRI · Crystal structure of Burkholderia pseudomallei D-alanine-D-alanine ligase in complex with… · the same entry in another collection · chain B against B, TM-score 1.00
- A3NZL3 · AlphaFold monomer V2.0 prediction for D-alanine--D-alanine ligase (A3NZL3) · a predicted model of the same protein · chain B against A, TM-score 0.99
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 A3NZL3
- Elsewhere: RCSB PDB 5NRI · PDBe 5NRI · UniProt A3NZL3
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