SMTL ID : 1oi6.1

Structure determination of the TMP-complex of EvaD

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: Y.76, S.132, Y.133, M.134 Chain B: T.49, S.132, Y.133, M.134 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:S.132, A:S.132, A:Y.133, B:T.49 Water bridges: A:Y.76, A:M.134, B:S.132, B:M.134 GOL.3: 1 residues within 4Å: Chain A: M.83 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.101

2 x TMP: THYMIDINE-5'-PHOSPHATE(Non-covalent)

TMP.2: 6 residues within 4Å: Chain A: Q.48, Y.139, R.169 Chain B: R.23, L.26, L.28 16 PLIP interactions: 9 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:Y.139, A:Y.139, B:L.26 Water bridges: A:Q.48, A:R.60, A:H.63, A:Y.139, B:R.23, B:R.23, B:R.23, B:R.23, B:R.23 Salt bridges: A:H.63, A:R.169, B:R.23 pi-Stacking: A:Y.139 TMP.4: 7 residues within 4Å: Chain A: R.23, L.26, L.28 Chain B: Q.48, I.50, Y.139, R.169 19 PLIP interactions: 13 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:I.50, B:Y.139, B:Y.139, A:L.26 Hydrogen bonds: B:Q.48 Water bridges: B:Q.48, B:R.60, B:R.60, B:H.63, B:Y.139, B:Y.139, A:R.23, A:R.23, A:R.23, A:R.23 Salt bridges: B:H.63, B:R.169, A:R.23 pi-Stacking: B:Y.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Merkel, A.B. et al., The Position of a Key Tyrosine in Dtdp-4-Keto-6-Deoxy-D-Glucose-5-Epimerase (Evad) Alters the Substrate Profile for This Rmlc-Like Enzyme. J.Biol.Chem. (2004)

Release Date

2004-06-03

Peptides

PCZA361.16: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PCZA361.16

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