SMTL ID : 1r74.1

Crystal Structure of Human Glycine N-Methyltransferase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

homo-tetramer

Ligands

8 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.1: 6 residues within 4Å: Chain A: G.186, C.187, A.188, V.204, T.206 Chain C: N.212 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.188 BME.3: 5 residues within 4Å: Chain B: G.186, C.187, V.204, T.206 Chain D: N.212 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:A.188, B:A.188, B:T.206 BME.4: 4 residues within 4Å: Chain B: Q.257, C.264, Q.265, H.266 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.257 BME.5: 4 residues within 4Å: Chain B: K.192, I.282, P.283, C.284 No protein-ligand interaction detected (PLIP) BME.7: 6 residues within 4Å: Chain A: N.212 Chain C: G.186, C.187, A.188, V.204, T.206 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:A.188 BME.9: 5 residues within 4Å: Chain B: N.212 Chain D: G.186, C.187, V.204, T.206 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:A.188, D:A.188, D:T.206 BME.10: 4 residues within 4Å: Chain D: Q.257, C.264, Q.265, H.266 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:Q.257 BME.11: 4 residues within 4Å: Chain D: K.192, I.282, P.283, C.284 No protein-ligand interaction detected (PLIP)

4 x CIT: CITRIC ACID(Non-functional Binders)

CIT.2: 11 residues within 4Å: Chain A: Y.33, G.139, N.140, H.144, R.177, N.193, Y.222, L.242, Y.244, Y.285 Chain B: E.15 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:Y.244 Hydrogen bonds: A:Y.33, A:G.139, A:N.140, A:N.193, A:Y.222, A:Y.244, A:Y.285 Salt bridges: A:H.144, A:K.202 CIT.6: 9 residues within 4Å: Chain B: Y.33, G.139, N.140, H.144, N.193, Y.222, L.242, Y.244, Y.285 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:Y.244 Hydrogen bonds: B:Y.33, B:N.140, B:N.193, B:Y.222, B:Y.285 Water bridges: B:R.177, B:R.177 Salt bridges: B:H.144, B:R.177 CIT.8: 11 residues within 4Å: Chain C: Y.33, G.139, N.140, H.144, R.177, N.193, Y.222, L.242, Y.244, Y.285 Chain D: E.15 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:Y.244 Hydrogen bonds: C:Y.33, C:G.139, C:N.140, C:N.193, C:Y.222, C:Y.244, C:Y.285 Salt bridges: C:H.144, C:K.202 CIT.12: 9 residues within 4Å: Chain D: Y.33, G.139, N.140, H.144, N.193, Y.222, L.242, Y.244, Y.285 10 PLIP interactions: 10 interactions with chain D Hydrophobic interactions: D:Y.244 Hydrogen bonds: D:Y.33, D:N.140, D:N.193, D:Y.222, D:Y.285 Water bridges: D:R.177, D:R.177 Salt bridges: D:H.144, D:R.177

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pakhomova, S. et al., Glycine N-methyltransferases: a comparison of the crystal structures and kinetic properties of recombinant human, mouse and rat enzymes. Proteins (2004)

Release Date

2004-09-21

Peptides

Glycine N-methyltransferase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Glycine N-methyltransferase