SMTL ID : 6nba.1

Crystal structure of Human Cystathionine gamma lyase with S-3-Carboxpropyl-L-Cysteine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-tetramer

Ligands

4 x P1T: 2-[({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)AMINO]ACRYLIC ACID(Non-covalent)

P1T.1: 18 residues within 4Å: Chain A: S.89, G.90, L.91, Y.114, E.157, N.161, D.187, T.189, S.209, T.211, K.212, M.222, E.339, S.340, T.355, R.375 Chain B: Y.60, R.62 15 PLIP interactions: 13 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.114, A:Y.114 Hydrogen bonds: A:S.89, A:G.90, A:L.91, A:N.161, A:T.189, A:S.209, A:T.211, A:S.340, B:Y.60 Salt bridges: A:K.212, A:K.212, A:R.375, B:R.62 P1T.2: 18 residues within 4Å: Chain A: Y.60, R.62 Chain B: S.89, G.90, L.91, Y.114, E.157, N.161, D.187, T.189, S.209, T.211, K.212, M.222, S.340, L.341, T.355, R.375 14 PLIP interactions: 12 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.114, B:Y.114 Hydrogen bonds: B:G.90, B:L.91, B:N.161, B:T.189, B:S.209, B:S.340, A:Y.60 Water bridges: B:E.157 Salt bridges: B:K.212, B:K.212, B:R.375, A:R.62 P1T.3: 18 residues within 4Å: Chain C: S.89, G.90, L.91, Y.114, E.157, N.161, D.187, T.189, S.209, T.211, K.212, M.222, S.340, L.341, T.355, R.375 Chain D: Y.60, R.62 16 PLIP interactions: 2 interactions with chain D, 14 interactions with chain C Hydrogen bonds: D:Y.60, C:S.89, C:G.90, C:L.91, C:N.161, C:S.209, C:T.211, C:K.212, C:S.340 Salt bridges: D:R.62, C:K.212, C:K.212, C:R.375 Hydrophobic interactions: C:Y.114, C:Y.114 Water bridges: C:T.117 P1T.4: 18 residues within 4Å: Chain C: Y.60, R.62 Chain D: S.89, G.90, L.91, Y.114, E.157, N.161, D.187, T.189, S.209, T.211, K.212, M.222, S.340, L.341, T.355, R.375 14 PLIP interactions: 2 interactions with chain C, 12 interactions with chain D Hydrogen bonds: C:Y.60, D:S.89, D:G.90, D:L.91, D:N.161, D:S.209, D:K.212, D:S.340 Salt bridges: C:R.62, D:K.212, D:K.212, D:R.375 Hydrophobic interactions: D:Y.114, D:Y.114

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yadav, P.K. et al., S-3-Carboxypropyl-l-cysteine specifically inhibits cystathionine gamma-lyase-dependent hydrogen sulfide synthesis. J.Biol.Chem. (2019)

Release Date

2019-06-12

Peptides

Cystathionine gamma-lyase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Cystathionine gamma-lyase