SMTL ID : 8s5l.1

Full-length human cystathionine beta-synthase, basal state, partially degraded tetramer

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

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

HEM.1: 24 residues within 4Å: Chain A: P.50, S.51, R.52, C.53, T.54, W.55, R.59, P.60, A.61, E.63, S.64, P.65, H.66, H.68, R.225, A.227, P.230, L.231, Y.234, T.263, G.264, R.267, T.314, V.315 11 PLIP interactions: 11 interactions with chain A, Hydrophobic interactions: A:E.63, A:P.65, A:A.227, A:P.230, A:Y.234 Hydrogen bonds: A:R.52, A:T.314 Salt bridges: A:R.52, A:R.52 pi-Cation interactions: A:R.267 Metal complexes: A:H.66 HEM.2: 22 residues within 4Å: Chain B: S.51, R.52, C.53, T.54, W.55, R.59, P.60, A.61, E.63, S.64, P.65, H.66, H.68, R.225, A.227, P.230, L.231, Y.234, G.264, R.267, T.314, V.315 13 PLIP interactions: 13 interactions with chain B, Hydrophobic interactions: B:R.52, B:A.227, B:P.230, B:L.231, B:Y.234, B:Y.234, B:V.315 Hydrogen bonds: B:R.52 Salt bridges: B:R.52, B:R.52, B:R.225 pi-Cation interactions: B:R.267 Metal complexes: B:H.66 HEM.4: 22 residues within 4Å: Chain C: P.50, S.51, R.52, C.53, T.54, W.55, R.59, P.60, A.61, E.63, S.64, P.65, H.66, H.68, R.225, A.227, P.230, L.231, Y.234, G.264, R.267, V.315 14 PLIP interactions: 14 interactions with chain C, Hydrophobic interactions: C:R.52, C:W.55, C:A.227, C:P.230, C:L.231, C:Y.234, C:Y.234 Hydrogen bonds: C:R.52, C:C.53 Salt bridges: C:R.52, C:R.52, C:R.225 pi-Cation interactions: C:R.267 Metal complexes: C:H.66 HEM.6: 24 residues within 4Å: Chain D: P.50, S.51, R.52, C.53, T.54, W.55, R.59, P.60, A.61, E.63, S.64, P.65, H.66, H.68, R.225, A.227, P.230, L.231, Y.234, T.263, G.264, R.267, T.314, V.315 11 PLIP interactions: 11 interactions with chain D, Hydrophobic interactions: D:E.63, D:P.65, D:A.227, D:P.230, D:Y.234 Hydrogen bonds: D:R.52, D:T.314 Salt bridges: D:R.52, D:R.52 pi-Cation interactions: D:R.267 Metal complexes: D:H.66

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)(Non-covalent)

PLP.3: 20 residues within 4Å: Chain B: S.118, V.119, K.120, I.123, N.150, N.229, S.255, V.256, G.257, T.258, G.259, G.260, T.261, E.305, G.306, I.307, S.350, P.376, D.377, Y.382 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:V.119, B:D.377 Hydrogen bonds: B:N.150, B:V.256, B:T.258, B:G.259, B:T.261, B:T.261, B:T.261, B:S.350 Salt bridges: B:K.120 PLP.5: 18 residues within 4Å: Chain C: S.118, V.119, K.120, N.150, S.255, V.256, G.257, T.258, G.259, G.260, T.261, I.262, G.306, I.307, S.350, P.376, D.377, Y.382 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:P.376, C:D.377 Hydrogen bonds: C:N.150, C:G.257, C:T.258, C:T.258, C:G.259, C:T.261, C:T.261, C:T.261 Salt bridges: C:K.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McCorvie, T.J. et al., Architecture and regulation of filamentous human cystathionine beta-synthase. Nat Commun (2024)

Release Date

2024-04-17

Peptides

Cystathionine beta-synthase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Cystathionine beta-synthase

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