SMTL ID : 2y62.1

Crystal structure of Leishmanial E65Q-TIM complexed with R-Glycidol phosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.08 Å

Oligo State

homo-dimer

Ligands

2 x G3P: SN-GLYCEROL-3-PHOSPHATE(Covalent)

G3P.1: 13 residues within 4Å: Chain A: K.14, H.96, E.168, A.172, I.173, G.174, G.213, S.214, L.233, V.234, G.235, G.236 Ligands: 1GP.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:E.168, A:L.233 Hydrogen bonds: A:K.14, A:A.172, A:G.174, A:S.214, A:G.235, A:G.236 Water bridges: A:V.215, A:A.237 Salt bridges: A:K.14 G3P.5: 13 residues within 4Å: Chain B: K.14, H.96, E.168, A.172, I.173, G.174, G.213, S.214, L.233, V.234, G.235, G.236 Ligands: 1GP.6 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:E.168, B:L.233 Hydrogen bonds: B:K.14, B:A.172, B:G.174, B:S.214, B:G.235, B:G.236 Water bridges: B:V.215, B:A.237 Salt bridges: B:K.14

2 x 1GP: SN-GLYCEROL-1-PHOSPHATE(Covalent)

1GP.2: 14 residues within 4Å: Chain A: N.12, K.14, H.96, E.168, A.172, I.173, G.174, G.213, S.214, L.233, V.234, G.235, G.236 Ligands: G3P.1 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:E.168, A:L.233 Hydrogen bonds: A:N.12, A:K.14, A:A.172, A:G.174, A:S.214, A:G.235, A:G.236 Water bridges: A:V.215, A:V.215, A:A.237 Salt bridges: A:K.14 1GP.6: 14 residues within 4Å: Chain B: N.12, K.14, H.96, E.168, A.172, I.173, G.174, G.213, S.214, L.233, V.234, G.235, G.236 Ligands: G3P.5 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:E.168, B:L.233 Hydrogen bonds: B:N.12, B:K.14, B:A.172, B:G.174, B:S.214, B:G.235, B:G.236 Water bridges: B:V.215, B:V.215, B:A.237 Salt bridges: B:K.14

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: T.180, E.182, Q.183 4 PLIP interactions: 4 interactions with chain A Water bridges: A:E.182, A:E.182, A:E.182, A:Q.183 GOL.4: 11 residues within 4Å: Chain A: F.46, N.67, G.77, E.78, R.99 Chain B: F.46, N.67, G.77, E.78, R.99 Ligands: GOL.8 11 PLIP interactions: 6 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:N.67, B:G.77, B:V.79, B:R.99, B:R.99, A:N.67 Water bridges: B:E.78, A:R.99, A:R.99, A:R.99, A:R.99 GOL.7: 3 residues within 4Å: Chain B: T.180, E.182, Q.183 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.180, B:E.182 Water bridges: B:E.182, B:E.182, B:E.182, B:Q.183 GOL.8: 11 residues within 4Å: Chain A: F.46, N.67, G.77, E.78, R.99 Chain B: F.46, N.67, G.77, E.78, R.99 Ligands: GOL.4 11 PLIP interactions: 7 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:N.67, B:G.77, A:N.67, A:V.79, A:R.99, A:R.99 Water bridges: B:E.78, B:R.99, B:R.99, B:R.99, B:R.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Venkatesan, R. et al., High Resolution Crystal Structures of Triosephosphate Isomerase Complexed with its Suicide Inhibitors: The Conformational Flexibility of the Catalytic Glutamate in its Closed, Liganded Active Site. Protein Sci. (2011)

Release Date

2011-12-14

Peptides

TRIOSEPHOSPHATE ISOMERASE SYNONYM TRIOSE-PHOSPHATE ISOMERASE, TIM: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

TRIOSEPHOSPHATE ISOMERASE SYNONYM TRIOSE-PHOSPHATE ISOMERASE, TIM

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