SMTL ID : 6ifd.1 (1 other biounit)

Crystal Structure of CMP-N-acetylneuraminate Synthetase from Vibrio cholerae in complex with CDP and Mg2+.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x CDP: CYTIDINE-5'-DIPHOSPHATE(Non-covalent)

CDP.1: 16 residues within 4Å: Chain A: T.27, A.28, R.29, S.32, K.33, K.38, N.39, R.88, L.92, T.94, A.97, Q.125, P.126, T.127, D.232 Ligands: PGE.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:T.27, A:R.29, A:G.31, A:S.32, A:K.33, A:N.39, A:N.39, A:R.88, A:R.88, A:L.92 Salt bridges: A:R.29, A:K.38, A:K.38 CDP.4: 15 residues within 4Å: Chain B: T.27, A.28, R.29, S.32, K.33, K.38, N.39, R.88, L.92, T.94, A.97, Q.125, P.126, T.127, D.232 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:R.29, B:G.31, B:S.32, B:K.33, B:N.39, B:N.39, B:R.88, B:R.88, B:L.92, B:D.232 Salt bridges: B:R.29

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.2: 8 residues within 4Å: Chain A: T.27, A.97, S.99, L.123, Q.125, Y.200, F.213 Ligands: CDP.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.97, A:S.99

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 2 residues within 4Å: Chain A: Q.112, K.113 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.113 EDO.6: 3 residues within 4Å: Chain B: D.230, D.232, D.236 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.230

1 x CA: CALCIUM ION(Non-functional Binders)

CA.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bose, S. et al., Structural and functional characterization of CMP-N-acetylneuraminate synthetase from Vibrio cholerae. Acta Crystallogr D Struct Biol (2019)

Release Date

2019-07-03

Peptides

CMP-N-acetylneuraminate Synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

CMP-N-acetylneuraminate Synthetase

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