SMTL ID : 1qy9.3 (2 other biounits)

Crystal structure of E. coli Se-MET protein YDDE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-tetramer

Ligands

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 7 residues within 4Å: Chain A: C.72, G.73, H.161, K.163, T.225, G.226, N.227 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.73, A:K.163, A:K.163, A:G.226, A:N.227 Water bridges: A:H.74, A:H.74 GOL.2: 7 residues within 4Å: Chain A: A.100, G.101, K.102, H.103 Chain D: E.32, A.33, Q.36 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain A Hydrogen bonds: D:E.32, A:K.102, A:K.102 GOL.4: 7 residues within 4Å: Chain D: C.72, G.73, H.161, K.163, T.225, G.226, N.227 9 PLIP interactions: 9 interactions with chain D Hydrogen bonds: D:G.73, D:K.163, D:K.163, D:G.226, D:N.227 Water bridges: D:H.74, D:H.74, D:G.226, D:N.227

1 x OH: HYDROXIDE ION(Non-covalent)

OH.3: 4 residues within 4Å: Chain B: E.46, C.72, G.73, H.74 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.73 Water bridges: B:H.74

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Grassick, A. et al., Crystal structure of E. coli yddE protein reveals a striking homology with diaminopimelate epimerase. Proteins (2004)

Release Date

2004-06-08

Peptides

HYPOTHETICAL PROTEIN yddE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

HYPOTHETICAL PROTEIN yddE

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