SMTL ID : 4uuu.1

1.7 A resolution structure of human cystathionine beta-synthase regulatory domain (del 516-525) in complex with SAM

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.71 Å

Oligo State

homo-dimer

Ligands

2 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.1: 17 residues within 4Å: Chain A: A.39, P.40, L.41, K.59, G.60, F.61, D.62, Q.63, A.64, V.141, T.143, I.145, D.146 Chain B: G.60, D.62 Ligands: EDO.2, SAM.9 14 PLIP interactions: 13 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:L.41, A:L.41, A:D.62, A:Q.63, A:T.143, A:T.143, A:T.143, A:D.146, B:D.62 Water bridges: A:D.62, A:D.62, A:V.141 pi-Stacking: A:F.61, A:F.61 SAM.9: 18 residues within 4Å: Chain A: G.60, D.62 Chain B: S.38, A.39, P.40, L.41, G.60, F.61, D.62, Q.63, A.64, P.65, V.141, T.143, I.145, D.146 Ligands: SAM.1, EDO.7 12 PLIP interactions: 11 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:L.41, B:L.41, B:D.62, B:D.62, B:Q.63, B:T.143, B:D.146, A:D.62 Water bridges: B:S.38, B:V.141 pi-Stacking: B:F.61, B:F.61

12 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 5 residues within 4Å: Chain A: G.36, L.37, S.38, D.146 Ligands: SAM.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.38 Water bridges: A:S.38 EDO.3: 5 residues within 4Å: Chain A: R.109, L.110, T.111, H.131, E.132 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.132 Water bridges: A:Q.136 EDO.4: 2 residues within 4Å: Chain A: W.28, H.29 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.29 EDO.5: 1 residues within 4Å: Chain A: Q.133 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.133 EDO.6: 3 residues within 4Å: Chain A: W.26, F.150, A.153 2 PLIP interactions: 2 interactions with chain A Water bridges: A:V.151, A:A.153 EDO.7: 7 residues within 4Å: Chain A: R.57, E.58, K.59, G.60 Chain B: K.59, G.60 Ligands: SAM.9 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.57, B:K.59 Water bridges: A:G.60 EDO.8: 3 residues within 4Å: Chain A: W.26, V.151 Chain B: P.93 1 PLIP interactions: 1 interactions with chain A Water bridges: A:V.151 EDO.10: 4 residues within 4Å: Chain B: Q.134, Q.136, M.137 Ligands: EDO.12 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.134, B:Q.136 EDO.11: 7 residues within 4Å: Chain B: N.81, S.85, K.90, V.100, I.101, Y.102 Ligands: EDO.13 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.81, B:S.85, B:K.90, B:V.100 EDO.12: 3 residues within 4Å: Chain B: A.70, Q.136 Ligands: EDO.10 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.136 EDO.13: 2 residues within 4Å: Chain B: K.90 Ligands: EDO.11 No protein-ligand interaction detected (PLIP) EDO.14: 1 residues within 4Å: Chain B: R.116 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.116

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mccorvie, T.J. et al., Inter-Domain Communication of Human Cystathionine Beta Synthase: Structural Basis of S-Adenosyl-L-Methionine Activation. J.Biol.Chem. (2014)

Release Date

2014-08-13

Peptides

CYSTATHIONINE BETA-SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

CYSTATHIONINE BETA-SYNTHASE