SMTL ID : 1eyz.1

STRUCTURE OF ESCHERICHIA COLI PURT-ENCODED GLYCINAMIDE RIBONUCLEOTIDE TRANSFORMYLASE COMPLEXED WITH MG AND AMPPNP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

5 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: E.279 Ligands: MG.2, ANP.6 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.279, A:E.279, H2O.1, H2O.2 MG.2: 4 residues within 4Å: Chain A: E.267, E.279 Ligands: MG.1, ANP.6 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.267, A:E.267, A:E.279, H2O.1 MG.3: 2 residues within 4Å: Chain A: D.286 Ligands: ANP.6 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.286, H2O.2, H2O.6, H2O.14, H2O.15 MG.8: 5 residues within 4Å: Chain B: E.84, R.114, E.279 Ligands: MG.9, ANP.11 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.279, B:E.279, H2O.26, H2O.30 MG.9: 4 residues within 4Å: Chain B: E.267, E.279 Ligands: MG.8, ANP.11 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.267, B:E.267, B:E.279, H2O.21

2 x NA: SODIUM ION(Non-functional Binders)

NA.4: 4 residues within 4Å: Chain A: N.100, V.101, P.103, C.104 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.100, A:V.101, A:V.101 Water bridges: A:Y.261 NA.10: 4 residues within 4Å: Chain A: H.51, A.53 Chain B: H.51, A.53 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.51

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

CL.5: 3 residues within 4Å: Chain A: R.119, R.133, F.134 Ligand excluded by PLIP

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.6: 22 residues within 4Å: Chain A: R.114, S.130, I.153, K.155, S.159, S.160, S.161, G.162, Q.165, E.195, G.196, V.197, V.198, F.200, E.203, Q.225, E.267, F.269, E.279 Ligands: MG.1, MG.2, MG.3 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:R.114, A:R.114, A:S.130, A:K.155, A:S.161, A:G.162, A:Q.165, A:E.195, A:V.198, A:E.203 Water bridges: A:Q.225, A:Q.225, A:Q.225, A:Q.225, A:E.267, A:E.267, A:S.278 Salt bridges: A:R.114, A:K.155 ANP.11: 21 residues within 4Å: Chain B: R.114, S.130, I.153, K.155, S.159, S.160, S.161, G.162, Q.165, E.195, G.196, V.197, V.198, F.200, E.203, Q.225, E.267, F.269, E.279 Ligands: MG.8, MG.9 22 PLIP interactions: 22 interactions with chain B Hydrogen bonds: B:R.114, B:R.114, B:S.130, B:K.155, B:S.161, B:G.162, B:Q.165, B:E.195, B:V.198, B:E.203, B:E.279 Water bridges: B:E.84, B:S.160, B:Q.225, B:Q.225, B:E.267, B:E.267, B:E.279, B:E.279, B:E.279 Salt bridges: B:R.114, B:K.155

1 x MPO: 3[N-MORPHOLINO]PROPANE SULFONIC ACID(Non-covalent)

MPO.7: 7 residues within 4Å: Chain A: D.46, M.50, H.51, R.55, S.56 Chain B: L.8, H.54 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.56 Water bridges: A:D.46 Salt bridges: A:D.46

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thoden, J.B. et al., Molecular structure of Escherichia coli PurT-encoded glycinamide ribonucleotide transformylase. Biochemistry (2000)

Release Date

2000-08-02

Peptides

PHOSPHORIBOSYLGLYCINAMIDE FORMYLTRANSFERASE 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PHOSPHORIBOSYLGLYCINAMIDE FORMYLTRANSFERASE 2

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