SMTL ID : 4e8g.1

Crystal structure of an enolase (mandelate racemase subgroup) from paracococus denitrificans pd1222 (target nysgrc-012907) with bound mg

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-octamer

Ligands

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

MG.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.2: 6 residues within 4Å: Chain A: Y.78, Q.184, D.216, N.218, E.241, D.264 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.216, A:E.241, A:D.264, H2O.10, H2O.10, H2O.10 MG.3: 6 residues within 4Å: Chain B: Y.78, Q.184, D.216, N.218, E.241, D.264 6 PLIP interactions: 3 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.216, B:E.241, B:D.264, H2O.19, H2O.19, H2O.19 MG.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.6: 6 residues within 4Å: Chain C: Y.78, Q.184, D.216, N.218, E.241, D.264 6 PLIP interactions: 3 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:D.216, C:E.241, C:D.264, H2O.28, H2O.28, H2O.28 MG.7: 6 residues within 4Å: Chain D: Y.78, Q.184, D.216, N.218, E.241, D.264 6 PLIP interactions: 3 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:D.216, D:E.241, D:D.264, H2O.37, H2O.37, H2O.37 MG.9: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.10: 6 residues within 4Å: Chain E: Y.78, Q.184, D.216, N.218, E.241, D.264 6 PLIP interactions: 3 interactions with chain E, 3 Ligand-Water interactions Metal complexes: E:D.216, E:E.241, E:D.264, H2O.46, H2O.46, H2O.46 MG.11: 6 residues within 4Å: Chain F: Y.78, Q.184, D.216, N.218, E.241, D.264 6 PLIP interactions: 3 interactions with chain F, 3 Ligand-Water interactions Metal complexes: F:D.216, F:E.241, F:D.264, H2O.55, H2O.55, H2O.55 MG.13: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.14: 6 residues within 4Å: Chain G: Y.78, Q.184, D.216, N.218, E.241, D.264 6 PLIP interactions: 3 interactions with chain G, 3 Ligand-Water interactions Metal complexes: G:D.216, G:E.241, G:D.264, H2O.64, H2O.65, H2O.65 MG.15: 6 residues within 4Å: Chain H: Y.78, Q.184, D.216, N.218, E.241, D.264 6 PLIP interactions: 3 interactions with chain H, 3 Ligand-Water interactions Metal complexes: H:D.216, H:E.241, H:D.264, H2O.74, H2O.74, H2O.74

4 x UNL: UNKNOWN LIGAND

UNL.4: 6 residues within 4Å: Chain B: Y.78, K.186, K.288, D.316, A.317, W.343 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:W.343, B:W.343 UNL.8: 6 residues within 4Å: Chain D: Y.78, K.186, K.288, D.316, A.317, W.343 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:W.343, D:W.343 UNL.12: 6 residues within 4Å: Chain F: Y.78, K.186, K.288, D.316, A.317, W.343 2 PLIP interactions: 2 interactions with chain F Hydrophobic interactions: F:W.343, F:W.343 UNL.16: 6 residues within 4Å: Chain H: Y.78, K.186, K.288, D.316, A.317, W.343 2 PLIP interactions: 2 interactions with chain H Hydrophobic interactions: H:W.343, H:W.343

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, R. et al., Prediction and biochemical demonstration of a catabolic pathway for the osmoprotectant proline betaine. MBio (2014)

Release Date

2012-05-02

Peptides

Mandelate racemase/muconate lactonizing enzyme, N-terminal domain protein: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

G
A

H
B

Mandelate racemase/muconate lactonizing enzyme, N-terminal domain protein

Related Entries With Identical Sequence