SMTL ID : 4amf.1 (1 other biounit)

Pseudomonas fluorescens PhoX in complex with the substrate analogue AppCp

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.52 Å

Oligo State

monomer

Ligands

1 x ACP: PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER(Non-covalent)

ACP.1: 16 residues within 4Å: Chain A: E.86, E.190, N.191, R.219, D.288, E.289, R.290, R.381, E.383, D.475, D.490, E.528 Ligands: CA.4, CA.5, CA.6, FEO.7 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:N.191, A:R.219, A:R.290, A:R.290, A:R.381, A:R.381, A:D.490 Water bridges: A:N.191, A:R.219, A:E.220, A:H.547 Salt bridges: A:R.381 pi-Cation interactions: A:R.219, A:R.219

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

CL.2: 5 residues within 4Å: Chain A: R.324, F.325, D.326, G.339, Q.340 Ligand excluded by PLIP CL.14: 8 residues within 4Å: Chain A: I.525, G.526, G.549, E.550, N.551, G.552, G.553 Ligands: EDO.15 Ligand excluded by PLIP

1 x LI: LITHIUM ION(Non-covalent)

LI.3: 1 residues within 4Å: Chain A: E.275 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.275, H2O.16

3 x CA: CALCIUM ION(Non-covalent)

CA.4: 9 residues within 4Å: Chain A: C.175, E.269, E.383, W.384, D.475, T.530 Ligands: ACP.1, CA.5, FEO.7 5 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:E.269, A:E.383, A:D.475, H2O.6, FEO.7 CA.5: 8 residues within 4Å: Chain A: R.381, E.383, T.399, D.475, D.490 Ligands: ACP.1, CA.4, CA.6 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.383, A:E.383, A:D.475, A:D.490, H2O.20 CA.6: 5 residues within 4Å: Chain A: D.490, E.528, H.547 Ligands: ACP.1, CA.5 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.490, A:E.528, A:E.528, H2O.7, H2O.7

1 x FEO: MU-OXO-DIIRON(Non-covalent)

FEO.7: 11 residues within 4Å: Chain A: D.65, E.86, C.175, E.190, E.269, D.288, R.381, E.383, D.475 Ligands: ACP.1, CA.4 9 PLIP interactions: 8 interactions with chain A, 1 Ligand-Water interactions, Water bridges: A:W.384 Metal complexes: A:E.86, A:C.175, A:E.190, A:E.190, A:E.269, A:D.288, A:E.383, H2O.6

9 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.8: 6 residues within 4Å: Chain A: V.386, V.387, P.389, L.477, G.478, F.479 3 PLIP interactions: 3 interactions with chain A Water bridges: A:N.177, A:N.177, A:V.387 EDO.9: 12 residues within 4Å: Chain A: W.34, D.62, N.89, Y.92, H.547, P.548, G.549, E.550, K.564, P.565, R.566, S.567 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.89, A:P.548 Water bridges: A:S.567 EDO.10: 9 residues within 4Å: Chain A: T.184, E.247, I.248, D.249, S.255, T.256, P.257, V.258, R.260 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.247, A:T.256, A:R.260 Water bridges: A:D.249 EDO.11: 4 residues within 4Å: Chain A: S.452, P.467, Q.468 Ligands: EDO.12 No protein-ligand interaction detected (PLIP) EDO.12: 6 residues within 4Å: Chain A: S.452, P.467, Q.468, M.470, G.501 Ligands: EDO.11 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.452, A:A.500 EDO.13: 6 residues within 4Å: Chain A: D.333, S.462, S.463, N.464, T.514, G.515 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.463 Water bridges: A:S.463, A:T.514, A:G.515 EDO.15: 8 residues within 4Å: Chain A: S.493, S.494, N.504, N.505, I.525, G.526, C.527 Ligands: CL.14 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.493, A:G.526 Water bridges: A:C.527 EDO.16: 6 residues within 4Å: Chain A: T.319, Y.321, E.343, T.345, K.348, K.438 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.321, A:K.438 EDO.17: 5 residues within 4Å: Chain A: P.150, G.318, T.345, Q.360, L.364 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.318, A:Q.360

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yong, S.C. et al., A Complex Iron-Calcium Cofactor Catalyzing Phosphotransfer Chemistry. Science (2014)

Release Date

2013-03-20

Peptides

PHOX: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PHOX

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