SMTL ID : 2gqn.1

Cystathionine Beta-Lyase (CBL) from Escherichia Coli in complex with N-Hydrazinocarbonylmethyl-2-Nitro-Benzamide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

4 x BLP: (5-HYDROXY-6-METHYL-4-((2-(2-(2-NITROBENZAMIDO)ACETYL)HYDRAZINYL)METHYL)PYRIDIN-3-YL)METHYL DIHYDROGEN PHOSPHATE(Non-covalent)

BLP.1: 21 residues within 4Å: Chain A: C.105, G.106, A.107, Y.131, E.132, P.133, E.174, S.178, D.205, T.207, A.227, T.229, K.230, M.239, Y.358, S.359, W.360, R.392 Chain C: F.75, Y.76, R.78 21 PLIP interactions: 16 interactions with chain A, 5 interactions with chain C Hydrophobic interactions: A:A.227, A:Y.358, A:Y.358, A:W.360, C:F.75 Hydrogen bonds: A:G.106, A:A.107, A:E.132, A:T.207, A:T.229, A:K.230, A:S.359, A:W.360, A:R.392, A:R.392, C:Y.76, C:Y.76 Salt bridges: A:K.230, C:R.78 pi-Stacking: A:Y.131 pi-Cation interactions: C:R.78 BLP.2: 22 residues within 4Å: Chain B: C.105, G.106, A.107, Y.131, E.132, P.133, E.174, S.178, D.205, T.207, A.227, T.229, K.230, M.239, Y.358, S.359, W.360, R.392 Chain D: F.75, Y.76, R.78, Y.258 22 PLIP interactions: 7 interactions with chain D, 15 interactions with chain B Hydrophobic interactions: D:F.75, D:Y.76, D:Y.258, B:A.227, B:W.360 Hydrogen bonds: D:Y.76, D:Y.76, B:G.106, B:A.107, B:Y.131, B:T.229, B:K.230, B:S.359, B:W.360, B:W.360, B:R.392, B:R.392 Salt bridges: D:R.78, B:K.230 pi-Cation interactions: D:R.78 Water bridges: B:E.132 pi-Stacking: B:Y.131 BLP.3: 21 residues within 4Å: Chain A: F.75, Y.76, R.78 Chain C: C.105, G.106, A.107, Y.131, E.132, P.133, E.174, S.178, D.205, T.207, A.227, T.229, K.230, M.239, Y.358, S.359, W.360, R.392 19 PLIP interactions: 15 interactions with chain C, 4 interactions with chain A Hydrophobic interactions: C:A.227, C:Y.358, C:Y.358, C:W.360, A:F.75 Hydrogen bonds: C:G.106, C:A.107, C:Y.131, C:E.132, C:K.230, C:S.359, C:W.360, C:R.392, C:R.392, A:Y.76 Salt bridges: C:K.230, A:R.78 pi-Stacking: C:Y.131 pi-Cation interactions: A:R.78 BLP.4: 22 residues within 4Å: Chain B: F.75, Y.76, R.78, Y.258 Chain D: C.105, G.106, A.107, Y.131, E.132, P.133, E.174, S.178, D.205, T.207, A.227, T.229, K.230, M.239, Y.358, S.359, W.360, R.392 24 PLIP interactions: 16 interactions with chain D, 8 interactions with chain B Hydrophobic interactions: D:A.227, D:W.360, B:F.75, B:Y.76, B:Y.258 Hydrogen bonds: D:G.106, D:A.107, D:T.207, D:T.229, D:T.229, D:K.230, D:S.359, D:W.360, D:W.360, D:R.392, D:R.392, B:Y.76, B:Y.76, B:Y.76 Water bridges: D:E.132 Salt bridges: D:K.230, B:R.78 pi-Stacking: D:Y.131 pi-Cation interactions: B:R.78

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ejim, L.J. et al., Inhibitors of Bacterial Cystathionine beta-Lyase: Leads for New Antimicrobial Agents and Probes of Enzyme Structure and Function. J.Med.Chem. (2007)

Release Date

2007-03-06

Peptides

Cystathionine beta-lyase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Cystathionine beta-lyase

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