SMTL ID : 2p8j.1

Crystal structure of S-adenosylmethionine-dependent methyltransferase (NP_349143.1) from Clostridium acetobutylicum at 2.00 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 7 residues within 4Å: Chain A: R.7, P.9, Y.96, R.181, R.185, Y.196 Chain B: R.13 6 PLIP interactions: 1 interactions with chain B, 5 interactions with chain A Salt bridges: B:R.13, A:R.181, A:R.185 Water bridges: A:R.181, A:R.181, A:R.185 SO4.2: 3 residues within 4Å: Chain A: S.162, L.163, E.164 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.163, A:E.164 Water bridges: A:T.131, A:K.132 Salt bridges: A:K.132 SO4.6: 7 residues within 4Å: Chain A: R.13 Chain B: R.7, Q.8, P.9, Y.96, R.181, R.185 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:Y.96 Water bridges: B:N.127, B:R.185, B:R.185, B:Q.194, B:Y.196 Salt bridges: B:R.181, B:R.185, A:R.13

3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 4 residues within 4Å: Chain A: K.25, T.26, G.46, K.48 No protein-ligand interaction detected (PLIP) PEG.8: 4 residues within 4Å: Chain B: K.25, T.26, G.46, K.48 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.48 PEG.9: 7 residues within 4Å: Chain A: E.184, R.185, K.191 Chain B: D.167, V.175, K.178, Y.199 No protein-ligand interaction detected (PLIP)

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain A: E.63, S.66, F.71, K.72, L.73, N.74, I.75 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.66, A:S.66, A:L.73, A:N.74, A:I.75 GOL.5: 4 residues within 4Å: Chain A: G.31, E.53, I.54, T.98 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.52, A:I.54 Water bridges: A:E.53 GOL.10: 1 residues within 4Å: Chain B: L.150 No protein-ligand interaction detected (PLIP) GOL.11: 6 residues within 4Å: Chain B: S.66, F.71, K.72, L.73, N.74, I.75 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.66, B:S.66, B:L.73, B:N.74, B:I.75, B:I.75 GOL.12: 4 residues within 4Å: Chain B: K.132, S.162, L.163, E.164 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:K.132, B:L.163, B:E.164 Water bridges: B:T.131, B:S.162, B:S.162 GOL.13: 8 residues within 4Å: Chain A: P.9, Q.10, E.179, R.181 Chain B: Q.10, R.13, E.179, R.181 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Q.10, B:R.13, B:D.198, A:E.179 Water bridges: A:Q.10 GOL.14: 6 residues within 4Å: Chain B: G.97, F.100, H.101, E.151, H.158, Y.196 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.97, B:E.151, B:Y.196

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.7: 5 residues within 4Å: Chain A: I.186, G.189, K.191 Chain B: K.174, F.204 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.191, B:K.174

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of S-adenosylmethionine-dependent methyltransferase (NP_349143.1) from Clostridium acetobutylicum at 2.00 A resolution. To be published

Release Date

2007-04-24

Peptides

S-adenosylmethionine-dependent methyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

S-adenosylmethionine-dependent methyltransferase