SMTL ID : 4a9v.1

Pseudomonas fluorescens PhoX

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.10 Å

Oligo State

monomer

Ligands

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

CL.1: 5 residues within 4Å: Chain A: R.328, F.329, D.330, G.343, Q.344 Ligand excluded by PLIP

3 x LI: LITHIUM ION(Non-covalent)

LI.2: 1 residues within 4Å: Chain A: E.279 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.279, A:E.279, H2O.22, H2O.22 LI.3: 7 residues within 4Å: Chain A: D.69, E.90, C.179, E.273, T.534 Ligands: CA.16, FEO.18 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.69, A:D.69, H2O.8, H2O.8, H2O.31 LI.6: 3 residues within 4Å: Chain A: D.494, E.532, H.551 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.494, H2O.32, H2O.32, H2O.32, H2O.34

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

NA.4: 7 residues within 4Å: Chain A: I.529, G.530, G.553, E.554, N.555, G.556, G.557 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.553, A:N.555, A:G.557 Water bridges: A:N.555 NA.5: 4 residues within 4Å: Chain A: R.126, W.131, P.540, D.541 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.126, A:R.126, A:D.541, A:D.541

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

EDO.7: 6 residues within 4Å: Chain A: P.154, D.320, H.321, G.322, Q.364, L.368 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.322, A:Q.364 Water bridges: A:T.349 EDO.8: 3 residues within 4Å: Chain A: N.54, P.99, H.100 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.54, A:H.100 EDO.9: 7 residues within 4Å: Chain A: P.51, S.52, R.95, Y.96, Y.98, P.99, K.568 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.98, A:K.568 Water bridges: A:P.51 EDO.10: 1 residues within 4Å: Chain A: P.148 No protein-ligand interaction detected (PLIP) EDO.11: 4 residues within 4Å: Chain A: P.77, G.187, F.255 Ligands: EDO.14 No protein-ligand interaction detected (PLIP) EDO.12: 6 residues within 4Å: Chain A: T.188, E.251, I.252, D.253, V.262, R.264 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.264, A:R.316 Water bridges: A:D.253 EDO.13: 2 residues within 4Å: Chain A: S.52, N.54 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.52, A:N.54 EDO.14: 5 residues within 4Å: Chain A: L.73, F.74, E.75, K.183 Ligands: EDO.11 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.75, A:E.75, A:E.75, A:K.183 EDO.15: 5 residues within 4Å: Chain A: S.152, G.153, A.156, D.320, H.321 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.153, A:H.321 Water bridges: A:D.320

2 x CA: CALCIUM ION(Non-covalent)

CA.16: 8 residues within 4Å: Chain A: C.179, E.273, E.387, W.388, D.479 Ligands: LI.3, CA.17, FEO.18 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.273, A:E.387, A:D.479, H2O.8, H2O.28 CA.17: 4 residues within 4Å: Chain A: E.387, D.479, D.494 Ligands: CA.16 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.387, A:E.387, A:D.494, H2O.27, H2O.27

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

FEO.18: 9 residues within 4Å: Chain A: D.69, E.90, C.179, E.194, E.273, D.292, E.387 Ligands: LI.3, CA.16 12 PLIP interactions: 10 interactions with chain A, 2 Ligand-Water interactions, Water bridges: A:N.195, A:N.195, A:D.494 Metal complexes: A:E.90, A:C.179, A:E.194, A:E.194, A:E.273, A:D.292, A:E.387, H2O.8, H2O.10

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

2012-12-05

Peptides

PHOX: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PHOX

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