SMTL ID : 3ids.1

Structure of Glycosomal Glyceraldehyde-3-Phosphate Dehydrogenase from Trypanosoma cruzi in complex with the irreversible iodoacetamide inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

3 x ACM: ACETAMIDE(Non-covalent)

ACM.1: 5 residues within 4Å: Chain A: I.13, S.165, C.166, N.335, Y.339 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.134, A:C.166 Water bridges: A:T.167 ACM.6: 4 residues within 4Å: Chain C: I.13, C.166, N.335, Y.339 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:Y.339 Hydrogen bonds: C:C.166 Water bridges: C:T.167 ACM.9: 4 residues within 4Å: Chain D: S.165, C.166, N.335, Y.339 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:C.166 Water bridges: D:S.134, D:S.165, D:N.335

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: L.296, D.300, F.301, D.304 Chain C: K.58 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:D.300, A:D.304 Water bridges: A:T.292, A:D.304, A:R.306, A:R.306, C:Y.52 GOL.4: 3 residues within 4Å: Chain B: Y.291, T.292, D.293 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:T.292, B:D.293, B:E.294 Water bridges: B:Y.291, B:Y.291, B:R.306, B:R.306 GOL.5: 6 residues within 4Å: Chain B: G.103, V.104, E.105, G.127, A.128, R.129 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:W.99, B:R.129 Water bridges: B:G.103 GOL.7: 7 residues within 4Å: Chain A: Y.52, K.58 Chain C: T.292, L.296, D.300, F.301, D.304 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:T.292, C:D.300 Water bridges: C:T.292, C:R.306 GOL.8: 3 residues within 4Å: Chain C: D.24, G.25, E.30 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.24, C:E.30 GOL.10: 3 residues within 4Å: Chain D: Y.291, T.292, D.293 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:D.293, D:D.293 Water bridges: D:Y.291, D:R.306

1 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.3: 22 residues within 4Å: Chain B: N.8, G.9, F.10, G.11, R.12, I.13, V.37, D.38, M.39, A.90, Q.91, S.110, T.111, G.112, L.113, S.134, A.135, C.166, A.198, N.335, E.336, Y.339 16 PLIP interactions: 15 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:I.13, B:Y.339 Hydrogen bonds: B:N.8, B:F.10, B:R.12, B:I.13, B:Q.91, B:N.335 Water bridges: B:G.11, B:G.14, B:Q.91, B:Q.91, B:G.112, B:S.134, B:T.197, C:V.206

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Balliano, T.L. et al., Structure of Glycosomal Glyceraldehyde-3-Phosphate Dehydrogenase from Trypanosoma cruzi in complex with the irreversible iodoacetamide inhibitor. To be Published

Release Date

2009-08-11

Peptides

Glyceraldehyde-3-phosphate dehydrogenase, glycosomal: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
A

D
B

Glyceraldehyde-3-phosphate dehydrogenase, glycosomal

Related Entries With Identical Sequence