SMTL ID : 7s6g.1

Crystal structure of PhnD from Synechococcus MITS9220 in complex with phosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.02 Å

Oligo State

monomer

Ligands

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

CL.1: 3 residues within 4Å: Chain A: E.125, R.131, K.273 Ligand excluded by PLIP CL.2: 3 residues within 4Å: Chain A: K.214, D.216, Q.217 Ligand excluded by PLIP CL.3: 3 residues within 4Å: Chain A: T.144, P.145, S.146 Ligand excluded by PLIP CL.4: 4 residues within 4Å: Chain A: P.145, R.152, A.153, F.155 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: R.34, A.230 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain A: R.6, K.38, R.40 Ligand excluded by PLIP CL.7: 3 residues within 4Å: Chain A: R.6, K.8, R.40 Ligand excluded by PLIP CL.8: 5 residues within 4Å: Chain A: Q.71, L.74, Q.75, I.274, R.275 Ligand excluded by PLIP CL.9: 6 residues within 4Å: Chain A: G.69, V.70, R.73, V.81, H.208, V.210 Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain A: R.152, Y.171 Ligand excluded by PLIP

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

EDO.11: 6 residues within 4Å: Chain A: I.87, R.90, F.91, R.92, E.178, Q.179 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.92, A:E.178, A:Q.179 EDO.12: 6 residues within 4Å: Chain A: D.160, I.163, A.164, A.184, R.189, V.190 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.164, A:R.189 Water bridges: A:R.189 EDO.13: 13 residues within 4Å: Chain A: D.14, Q.15, R.19, L.20, L.23, Y.24, W.63, R.85, N.177, Q.179, Y.207, L.247, F.248 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Q.15, A:W.63, A:R.85, A:Q.179, A:L.247 Water bridges: A:R.19, A:Q.179, A:Y.207

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.14: 10 residues within 4Å: Chain A: I.12, Y.47, G.65, G.66, S.127, T.128, S.129, H.159, D.206, Y.207 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:T.128, A:S.129, A:D.206, A:Y.207, A:Y.207, A:Y.207 Water bridges: A:L.67 Salt bridges: A:H.159

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shah, B.S. et al., Marine picocyanobacterial PhnD1 shows specificity for various phosphorus sources but likely represents a constitutive inorganic phosphate transporter. Isme J (2023)

Release Date

2021-10-27

Peptides

Phosphonate ABC type transporter/ substrate binding component: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Phosphonate ABC type transporter/ substrate binding component

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