SMTL ID : 1xva.1

METHYLTRANSFERASE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

4 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 7 residues within 4Å: Chain A: W.30, I.34, L.240 Chain B: A.13, A.14, E.15 Ligands: SAM.2 No protein-ligand interaction detected (PLIP) ACT.3: 8 residues within 4Å: Chain A: A.13, A.14, E.15 Chain B: W.30, Y.33, I.34, L.240 Ligands: SAM.4 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:I.34 Hydrogen bonds: A:E.15 ACT.5: 7 residues within 4Å: Chain C: W.30, I.34, L.240 Chain D: A.13, A.14, E.15 Ligands: SAM.6 No protein-ligand interaction detected (PLIP) ACT.7: 8 residues within 4Å: Chain C: A.13, A.14, E.15 Chain D: W.30, Y.33, I.34, L.240 Ligands: SAM.8 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:I.34 Hydrogen bonds: C:E.15

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

SAM.2: 19 residues within 4Å: Chain A: Y.33, T.37, A.64, V.69, D.70, L.136, G.137, S.139, H.142, R.175, P.187, P.188, G.189, I.202, Y.220, Y.242, Y.283 Chain B: E.15 Ligands: ACT.1 15 PLIP interactions: 12 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:Y.33, A:D.70, A:S.139, A:R.175, A:R.175, A:P.187, A:G.189, A:Y.220, A:Y.242, A:Y.242, B:E.15, B:E.15 Water bridges: A:G.68, A:L.136 Salt bridges: B:E.15 SAM.4: 17 residues within 4Å: Chain A: E.15 Chain B: Y.33, A.64, D.70, L.136, G.137, N.138, S.139, H.142, R.175, P.187, Y.194, I.202, Y.220, Y.242, Y.283 Ligands: ACT.3 16 PLIP interactions: 13 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:Y.33, B:D.70, B:D.70, B:N.138, B:S.139, B:H.142, B:P.187, B:Y.220, B:Y.242, A:E.15, A:E.15 Water bridges: B:A.64, B:D.70, B:D.70, B:L.136 Salt bridges: A:E.15 SAM.6: 19 residues within 4Å: Chain C: Y.33, T.37, A.64, V.69, D.70, L.136, G.137, S.139, H.142, R.175, P.187, P.188, G.189, I.202, Y.220, Y.242, Y.283 Chain D: E.15 Ligands: ACT.5 15 PLIP interactions: 12 interactions with chain C, 3 interactions with chain D Hydrogen bonds: C:Y.33, C:D.70, C:S.139, C:R.175, C:R.175, C:P.187, C:G.189, C:Y.220, C:Y.242, C:Y.242, D:E.15, D:E.15 Water bridges: C:G.68, C:L.136 Salt bridges: D:E.15 SAM.8: 17 residues within 4Å: Chain C: E.15 Chain D: Y.33, A.64, D.70, L.136, G.137, N.138, S.139, H.142, R.175, P.187, Y.194, I.202, Y.220, Y.242, Y.283 Ligands: ACT.7 16 PLIP interactions: 13 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:Y.33, D:D.70, D:D.70, D:N.138, D:S.139, D:H.142, D:P.187, D:Y.220, D:Y.242, C:E.15, C:E.15 Water bridges: D:A.64, D:D.70, D:D.70, D:L.136 Salt bridges: C:E.15

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fu, Z. et al., Crystal structure of glycine N-methyltransferase from rat liver. Biochemistry (1996)

Release Date

1997-01-27

Peptides

GLYCINE N-METHYLTRANSFERASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

GLYCINE N-METHYLTRANSFERASE

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