SMTL ID : 7qgt.1

Crystal structure of human cystathionine beta-synthase (delta516-525) in complex with AOAA.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.69 Å

Oligo State

homo-dimer

Ligands

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 19 residues within 4Å: Chain A: S.72, R.73, C.74, T.75, W.76, R.80, E.84, S.85, P.86, H.87, R.246, A.248, P.251, L.252, Y.255, G.285, R.288, T.335, V.336 15 PLIP interactions: 15 interactions with chain A, Hydrophobic interactions: A:W.76, A:R.80, A:A.248, A:P.251, A:P.251, A:L.252, A:Y.255, A:V.336 Hydrogen bonds: A:R.73 Salt bridges: A:R.73, A:H.87, A:R.246 pi-Cation interactions: A:R.288 Metal complexes: A:C.74, A:H.87 HEM.3: 19 residues within 4Å: Chain B: P.71, S.72, R.73, C.74, T.75, W.76, R.80, E.84, S.85, P.86, H.87, R.246, A.248, P.251, L.252, Y.255, R.288, T.335, V.336 16 PLIP interactions: 16 interactions with chain B, Hydrophobic interactions: B:R.73, B:P.86, B:A.248, B:P.251, B:L.252, B:Y.255, B:Y.255, B:V.336 Hydrogen bonds: B:P.71, B:R.73 Salt bridges: B:R.73, B:H.87, B:R.246 pi-Cation interactions: B:R.288 Metal complexes: B:C.74, B:H.87

1 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.2: 16 residues within 4Å: Chain A: K.141, S.169, N.171, S.276, V.277, G.278, T.279, G.280, G.281, T.282, E.326, G.327, I.328, S.371, P.397, D.398 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:K.141 Hydrogen bonds: A:S.169, A:N.171, A:S.276, A:G.278, A:T.279, A:G.280, A:G.281, A:T.282, A:T.282, A:S.371 Salt bridges: A:K.141

1 x IK2: 4'-DEOXY-4'-ACETYLYAMINO-PYRIDOXAL-5'-PHOSPHATE(Non-covalent)

IK2.4: 21 residues within 4Å: Chain B: K.141, T.168, S.169, G.170, N.171, T.172, Q.244, S.276, V.277, G.278, T.279, G.280, G.281, T.282, E.326, G.327, I.328, S.371, P.397, D.398, Y.403 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:D.398 Hydrogen bonds: B:T.168, B:S.169, B:S.169, B:S.169, B:G.170, B:N.171, B:N.171, B:T.172, B:Q.244, B:G.278, B:T.279, B:G.280, B:G.281, B:T.282, B:T.282, B:T.282, B:S.371 Salt bridges: B:K.141, B:K.141

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Petrosino, M. et al., H 2 S biogenesis by cystathionine beta-synthase: mechanism of inhibition by aminooxyacetic acid and unexpected role of serine. Cell.Mol.Life Sci. (2022)

Release Date

2022-10-19

Peptides

Cystathionine beta-synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cystathionine beta-synthase

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