SMTL ID : 2vxn.1

E65Q-TIM complexed with phosphoglycolohydroxamate at 0.82 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 0.82 Å

Oligo State

homo-dimer

Ligands

2 x PGH: PHOSPHOGLYCOLOHYDROXAMIC ACID(Non-covalent)

PGH.1: 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: PGA.2 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:N.12, A:K.14, A:H.96, A:G.174, A:S.214, A:L.233, A:G.235, A:G.236 Water bridges: A:V.215, A:A.237 Salt bridges: A:K.14 PGH.9: 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: PGA.10 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:N.12, B:K.14, B:H.96, B:G.174, B:S.214, B:L.233, B:G.235, B:G.236 Water bridges: B:V.215, B:A.237 Salt bridges: B:K.14

2 x PGA: 2-PHOSPHOGLYCOLIC ACID(Non-covalent)

PGA.2: 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: PGH.1 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:N.12, A:G.174, A:S.214, A:G.235, A:G.236 Water bridges: A:G.213, A:V.215, A:A.237 Salt bridges: A:K.14, A:K.14, A:H.96 PGA.10: 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: PGH.9 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:N.12, B:G.174, B:S.214, B:G.235, B:G.236 Water bridges: B:G.213, B:V.215, B:A.237 Salt bridges: B:K.14, B:K.14, B:H.96

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 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.11 10 PLIP interactions: 3 interactions with chain B, 7 interactions with chain A Hydrogen bonds: B:N.67, A:N.67, A:G.77, A:G.77 Water bridges: B:R.99, B:R.99, A:E.78, A:E.78, A:R.99, A:R.99 GOL.4: 3 residues within 4Å: Chain A: W.194, N.198 Ligands: GOL.5 No protein-ligand interaction detected (PLIP) GOL.5: 5 residues within 4Å: Chain A: L.145, S.146, S.149, W.194 Ligands: GOL.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.149, A:S.149 GOL.6: 1 residues within 4Å: Chain A: G.176 3 PLIP interactions: 3 interactions with chain A Water bridges: A:G.176, A:N.216, A:N.216 GOL.7: 2 residues within 4Å: Chain A: T.180, E.182 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.180, A:E.182 Water bridges: A:E.182, A:E.182 GOL.11: 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.3 10 PLIP interactions: 6 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:N.67, B:G.77, B:G.77, A:N.67 Water bridges: B:V.79, B:R.99, B:R.99, A:E.78, A:R.99, A:R.99 GOL.12: 3 residues within 4Å: Chain B: W.194, N.198 Ligands: GOL.13 No protein-ligand interaction detected (PLIP) GOL.13: 5 residues within 4Å: Chain B: L.145, S.146, S.149, W.194 Ligands: GOL.12 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.149, B:S.149 GOL.14: 1 residues within 4Å: Chain B: G.176 3 PLIP interactions: 3 interactions with chain B Water bridges: B:G.176, B:N.216, B:N.216 GOL.15: 2 residues within 4Å: Chain B: T.180, E.182 2 PLIP interactions: 2 interactions with chain B Water bridges: B:E.182, B:E.182

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.8: 4 residues within 4Å: Chain A: P.241, E.242, R.244, D.245 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:E.242 Hydrogen bonds: A:D.245 Water bridges: A:E.242 Salt bridges: A:R.244 ACT.16: 4 residues within 4Å: Chain B: P.241, E.242, R.244, D.245 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:E.242 Hydrogen bonds: B:D.245 Water bridges: B:E.242 Salt bridges: B:R.244

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alahuhta, M. et al., Atomic Resolution Crystallography of a Complex of Triosephosphate Isomerase with a Reaction-Intermediate Analog: New Insight in the Proton Transfer Reaction Mechanism. Proteins (2010)

Release Date

2009-07-14

Peptides

TRIOSEPHOSPHATE ISOMERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

TRIOSEPHOSPHATE ISOMERASE

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