SMTL ID : 1q0n.1

CRYSTAL STRUCTURE OF A TERNARY COMPLEX OF 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN PYROPHOSPHOKINASE FROM E. COLI WITH MGAMPCPP AND 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN AT 1.25 ANGSTROM RESOLUTION

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.25 Å

Oligo State

monomer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: D.95, D.97 Ligands: MG.2, APC.8 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.95, A:D.97, H2O.1, H2O.1 MG.2: 5 residues within 4Å: Chain A: D.95, D.97 Ligands: MG.1, APC.8, PH2.9 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.95, A:D.97, H2O.1

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 4 residues within 4Å: Chain A: P.114, F.137, P.138, D.139 Ligand excluded by PLIP

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

ACT.4: 3 residues within 4Å: Chain A: H.115, Y.116 Ligands: APC.8 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.115 ACT.5: 3 residues within 4Å: Chain A: E.30, S.31, H.32 4 PLIP interactions: 4 interactions with chain A Water bridges: A:E.30, A:E.30, A:E.30 Salt bridges: A:H.32 ACT.6: 2 residues within 4Å: Chain A: L.11, P.51 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.11 ACT.7: 2 residues within 4Å: Chain A: G.46, W.89 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:W.89

1 x APC: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER(Non-covalent)

APC.8: 19 residues within 4Å: Chain A: L.70, Q.74, R.84, W.89, R.92, D.95, D.97, I.98, R.110, L.111, T.112, V.113, H.115, Y.116, R.121 Ligands: MG.1, MG.2, ACT.4, PH2.9 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:Q.74, A:R.84, A:R.84, A:R.92, A:R.92, A:I.98, A:T.112, A:T.112 Water bridges: A:R.88, A:W.89, A:R.92 Salt bridges: A:H.115, A:R.121

1 x PH2: 2-AMINO-6-HYDROXYMETHYL-7,8-DIHYDRO-3H-PTERIDIN-4-ONE(Non-covalent)

PH2.9: 13 residues within 4Å: Chain A: T.42, P.43, P.44, L.45, Y.53, N.55, W.89, D.95, D.97, R.121, F.123 Ligands: MG.2, APC.8 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:T.42, A:P.43, A:L.45, A:L.45, A:N.55, A:N.55 Water bridges: A:W.89, A:R.121, A:R.121 pi-Stacking: A:Y.53, A:F.123 pi-Cation interactions: A:Y.53, A:F.123

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Blaszczyk, J. et al., Catalytic Center Assembly of Hppk as Revealed by the Crystal Structure of a Ternary Complex at 1.25 A Resolution. Structure (2000)

Release Date

2003-08-26

Peptides

2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase

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