SMTL ID : 6ckk.1

N. meningitidis CMP-sialic acid synthetase in the presence of CTP and Ca2+

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x CTP: CYTIDINE-5'-TRIPHOSPHATE(Non-covalent)

CTP.1: 18 residues within 4Å: Chain A: L.10, A.11, R.12, S.15, K.16, G.17, K.21, N.22, R.71, A.80, S.81, S.82, Q.104, P.105, T.106, D.211 Ligands: CA.2, CA.3 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:R.12, A:K.16, A:G.17, A:N.22, A:N.22, A:R.71, A:R.71, A:A.80 Water bridges: A:R.12, A:R.12, A:R.12, A:L.18, A:L.18, A:K.21, A:K.21, A:A.80, A:T.106 Salt bridges: A:R.12, A:R.12, A:K.21, A:K.21, A:K.21 CTP.4: 18 residues within 4Å: Chain B: L.10, A.11, R.12, N.14, S.15, K.16, G.17, K.21, N.22, R.71, D.78, A.80, S.81, S.82, Q.104, P.105, T.106, D.211 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:R.12, B:R.12, B:R.12, B:N.14, B:K.16, B:G.17, B:N.22, B:N.22, B:R.71, B:R.71, B:A.80 Water bridges: B:T.106, B:T.106 Salt bridges: B:R.12, B:R.12, B:K.21, B:K.21, B:K.21 pi-Cation interactions: B:R.12

3 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)

CA.2: 3 residues within 4Å: Chain A: D.209, D.211 Ligands: CTP.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.211, H2O.1, H2O.4, H2O.7, H2O.10 CA.3: 1 residues within 4Å: Ligands: CTP.1 No protein-ligand interaction detected (PLIP) CA.5: 1 residues within 4Å: Chain B: D.209 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.209, H2O.16, H2O.18, H2O.20, H2O.23

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Matthews, M.M. et al., Catalytic Cycle ofNeisseria meningitidisCMP-Sialic Acid Synthetase Illustrated by High-Resolution Protein Crystallography. Biochemistry (2019)

Release Date

2019-03-06

Peptides

N-acylneuraminate cytidylyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

N-acylneuraminate cytidylyltransferase

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