SMTL ID : 6z9j.1

Escherichia coli D-2-deoxyribose-5-phosphate aldolase - N21K mutant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

9 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.1: 2 residues within 4Å: Chain A: H.78 Chain B: E.27 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:H.78, H2O.5, H2O.7, H2O.16, H2O.17, H2O.17 MG.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.3: 1 residues within 4Å: Chain A: K.37 No protein-ligand interaction detected (PLIP) MG.4: 2 residues within 4Å: Chain A: F.76 Chain B: D.26 No protein-ligand interaction detected (PLIP) MG.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.6: 2 residues within 4Å: Chain A: D.22 Chain B: D.22 No protein-ligand interaction detected (PLIP) MG.7: 1 residues within 4Å: Chain B: D.81 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.81, H2O.13, H2O.18, H2O.18 MG.8: 2 residues within 4Å: Chain A: E.27 Chain B: H.78 6 PLIP interactions: 1 interactions with chain B, 5 Ligand-Water interactions Metal complexes: B:H.78, H2O.3, H2O.3, H2O.6, H2O.18, H2O.18 MG.9: 2 residues within 4Å: Chain A: D.26 Chain B: F.76 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Voutilainen, S. et al., Substrate specificity of 2-deoxy-D-ribose 5-phosphate aldolase (DERA) assessed by different protein engineering and machine learning methods. Appl.Microbiol.Biotechnol. (2020)

Release Date

2020-11-18

Peptides

Deoxyribose-phosphate aldolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Deoxyribose-phosphate aldolase

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