SMTL ID : 4icn.1

Dihydrodipicolinate synthase from shewanella benthica

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.1: 4 residues within 4Å: Chain A: S.281, T.282, E.283 Chain B: K.119 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.282, A:T.282, A:T.282, A:E.283, B:K.119, B:K.119

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 11 residues within 4Å: Chain A: A.14, L.15, V.46, G.49, T.50, T.51, G.52, L.107, Y.139, K.167 Ligands: SO4.4 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:L.15, A:G.49, A:T.50, A:T.51, A:G.52, A:K.167 GOL.3: 7 residues within 4Å: Chain A: Y.36, E.40, I.215, V.216, P.217, K.218, L.219 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.218, A:L.219 GOL.6: 9 residues within 4Å: Chain B: A.14, V.46, G.49, T.50, T.51, G.52, L.107, Y.139, K.167 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.49, B:T.51, B:T.51, B:G.52, B:K.167

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

SO4.4: 8 residues within 4Å: Chain A: T.50, V.141, R.144, G.192, F.250, N.254 Ligands: GOL.2, CL.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.254 Salt bridges: A:R.144 SO4.7: 5 residues within 4Å: Chain A: K.115 Chain B: R.144, F.250, A.253, N.254 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:N.254 Salt bridges: B:R.144, A:K.115

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 4 residues within 4Å: Chain A: R.144, F.250, N.254 Ligands: SO4.4 Ligand excluded by PLIP CL.8: 2 residues within 4Å: Chain B: R.144, N.254 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wubben, J.M. et al., Cold enzymology offers insight into molecular evolution in quaternary structure. To be Published

Release Date

2013-12-11

Peptides

DIHYDRODIPICOLINATE SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DIHYDRODIPICOLINATE SYNTHASE