SMTL ID : 1o93.1

Methionine Adenosyltransferase complexed with ATP and a L-methionine analogue

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.49 Å

Oligo State

homo-tetramer

Ligands

2 x LIS: (2S,4S)-2-AMINO-4,5-EPOXIPENTANOIC ACID(Non-covalent)

LIS.1: 4 residues within 4Å: Chain A: R.250, F.251 Ligands: MG.4, ATP.7 No protein-ligand interaction detected (PLIP) LIS.10: 4 residues within 4Å: Chain C: R.250, F.251 Ligands: MG.13, ATP.16 No protein-ligand interaction detected (PLIP)

4 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 6 residues within 4Å: Chain A: K.182, Q.184, V.205, S.207 Chain B: D.135 Ligands: MG.3 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:S.207, B:D.135 Salt bridges: A:K.182 PO4.8: 5 residues within 4Å: Chain A: R.265, K.266 Chain B: G.280, A.282, K.286 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:D.32, B:A.282 Salt bridges: A:K.266, B:K.286 PO4.11: 6 residues within 4Å: Chain C: K.182, Q.184, V.205, S.207 Chain D: D.135 Ligands: MG.12 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.207 Salt bridges: C:K.182 PO4.17: 5 residues within 4Å: Chain C: R.265, K.266 Chain D: G.280, A.282, K.286 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:A.282, C:D.32 Salt bridges: D:K.286, C:K.266

6 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: S.248 Chain B: D.135 Ligands: PO4.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.248 MG.4: 3 residues within 4Å: Chain A: K.182 Ligands: LIS.1, ATP.7 No protein-ligand interaction detected (PLIP) MG.5: 3 residues within 4Å: Chain A: E.24, K.266 Ligands: ATP.7 No protein-ligand interaction detected (PLIP) MG.12: 3 residues within 4Å: Chain C: S.248 Chain D: D.135 Ligands: PO4.11 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:S.248 MG.13: 3 residues within 4Å: Chain C: K.182 Ligands: LIS.10, ATP.16 No protein-ligand interaction detected (PLIP) MG.14: 3 residues within 4Å: Chain C: E.24, K.266 Ligands: ATP.16 No protein-ligand interaction detected (PLIP)

4 x K: POTASSIUM ION(Non-covalent)

K.6: 3 residues within 4Å: Chain A: G.264, I.267 Chain B: R.265 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:G.264 K.9: 3 residues within 4Å: Chain B: A.282, S.284, K.286 No protein-ligand interaction detected (PLIP) K.15: 3 residues within 4Å: Chain C: G.264, I.267 Chain D: R.265 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:G.264 K.18: 3 residues within 4Å: Chain D: A.282, S.284, K.286 No protein-ligand interaction detected (PLIP)

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.7: 13 residues within 4Å: Chain A: H.30, P.31, D.180, K.182, G.258, D.259, K.266 Chain B: A.56, E.71, K.290 Ligands: LIS.1, MG.4, MG.5 11 PLIP interactions: 7 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:D.180, A:G.258, B:E.71, B:K.290 Water bridges: A:K.182, B:T.73, B:T.73 Salt bridges: A:H.30, A:H.30, A:K.182, A:K.266 ATP.16: 13 residues within 4Å: Chain C: H.30, P.31, D.180, K.182, G.258, D.259, K.266 Chain D: A.56, E.71, K.290 Ligands: LIS.10, MG.13, MG.14 13 PLIP interactions: 5 interactions with chain D, 8 interactions with chain C Hydrogen bonds: D:E.71, D:E.71, D:K.290, C:D.180, C:G.258, C:D.259 Water bridges: D:T.73, D:T.73, C:K.182 Salt bridges: C:H.30, C:H.30, C:K.182, C:K.266

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gonzalez, B. et al., Crystal Structures of Methionine Adenosyltransferase Complexed with Substrates and Products Reveal the Methionine-ATP Recognition and Give Insights Into the Catalytic Mechanism. J.Mol.Biol. (2003)

Release Date

2003-08-07

Peptides

S-ADENOSYLMETHIONINE SYNTHETASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

S-ADENOSYLMETHIONINE SYNTHETASE

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