SMTL ID : 8s5k.1

Full-length human cystathionine beta-synthase, basal state, single particle reconstruction

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-octamer

Ligands

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

HEM.1: 23 residues within 4Å: Chain A: 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 16 PLIP interactions: 16 interactions with chain A, Hydrophobic interactions: A:R.52, A:W.55, A:R.59, A:E.63, A:P.65, A:A.227, A:P.230, A:P.230, A:L.231, A:Y.234, A:Y.234 Hydrogen bonds: A:R.52 Salt bridges: A:R.52, A:R.52 pi-Cation interactions: A:R.267 Metal complexes: A:H.66 HEM.2: 23 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, T.263, G.264, R.267, T.314, V.315 17 PLIP interactions: 17 interactions with chain B, Hydrophobic interactions: B:R.52, B:W.55, B:W.55, B:R.59, B:E.63, B:P.65, B:A.227, B:P.230, B:P.230, B:L.231, B:Y.234, B:Y.234 Hydrogen bonds: B:R.52, B:R.225 Salt bridges: B:R.52, B:R.52, B:R.225 HEM.3: 24 residues within 4Å: Chain C: 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, N.226, A.227, P.230, L.231, Y.234, T.263, G.264, R.267, T.314, V.315 18 PLIP interactions: 18 interactions with chain C, Hydrophobic interactions: C:R.52, C:W.55, C:R.59, C:E.63, C:P.65, C:A.227, C:P.230, C:P.230, C:Y.234, C:Y.234, C:V.315 Hydrogen bonds: C:R.52, C:R.225 Salt bridges: C:R.52, C:R.52, C:R.225 pi-Cation interactions: C:R.267 Metal complexes: C:H.66 HEM.4: 23 residues within 4Å: Chain D: 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 12 PLIP interactions: 12 interactions with chain D, Hydrophobic interactions: D:E.63, D:P.65, D:A.227, D:P.230, D:L.231, D:Y.234, D:Y.234, D:V.315 Hydrogen bonds: D:R.52 Salt bridges: D:R.52, D:R.52 Metal complexes: D:H.66 HEM.5: 22 residues within 4Å: Chain E: S.51, R.52, C.53, T.54, W.55, 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 14 PLIP interactions: 14 interactions with chain E, Hydrophobic interactions: E:E.63, E:P.65, E:A.227, E:P.230, E:L.231, E:Y.234, E:Y.234, E:V.315 Hydrogen bonds: E:R.52, E:R.225 Salt bridges: E:R.52, E:R.52, E:R.225 Metal complexes: E:H.66 HEM.6: 24 residues within 4Å: Chain F: 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, N.226, A.227, P.230, L.231, Y.234, T.263, G.264, R.267, T.314, V.315 17 PLIP interactions: 17 interactions with chain F, Hydrophobic interactions: F:R.52, F:W.55, F:E.63, F:P.65, F:A.227, F:P.230, F:P.230, F:Y.234, F:Y.234, F:V.315 Hydrogen bonds: F:R.52, F:R.225 Salt bridges: F:R.52, F:R.52, F:R.225 pi-Cation interactions: F:R.267 Metal complexes: F:H.66 HEM.7: 24 residues within 4Å: Chain G: 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, N.226, A.227, P.230, L.231, Y.234, T.263, G.264, R.267, T.314, V.315 15 PLIP interactions: 15 interactions with chain G, Hydrophobic interactions: G:R.52, G:W.55, G:R.59, G:P.65, G:A.227, G:P.230, G:L.231, G:Y.234, G:Y.234 Hydrogen bonds: G:R.52, G:R.225 Salt bridges: G:R.52, G:R.52, G:R.225 pi-Cation interactions: G:R.267 HEM.8: 23 residues within 4Å: Chain H: 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 14 PLIP interactions: 14 interactions with chain H, Hydrophobic interactions: H:R.52, H:R.59, H:E.63, H:P.65, H:A.227, H:P.230, H:P.230, H:L.231, H:Y.234, H:Y.234 Hydrogen bonds: H:R.52 Salt bridges: H:R.52, H:R.52 Metal complexes: H:H.66

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: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

Cystathionine beta-synthase

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