SMTL ID : 2o4v.1

An arginine ladder in OprP mediates phosphate specific transfer across the outer membrane

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

homo-trimer

Ligands

3 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: D.54, N.234, D.235 Chain B: N.173, G.177, S.179 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.54, A:D.54, A:D.235 CA.8: 6 residues within 4Å: Chain B: D.54, N.234, D.235 Chain C: N.173, G.177, S.179 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain B Metal complexes: C:G.177, B:D.54, B:D.54, B:D.235 CA.10: 6 residues within 4Å: Chain A: N.173, G.177, S.179 Chain C: D.54, N.234, D.235 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Metal complexes: C:D.54, C:D.54, C:D.235, A:G.177

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

PO4.2: 8 residues within 4Å: Chain A: R.34, R.60, Y.62, D.94, Y.114, S.124, S.125, R.133 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:Y.62, A:S.125, A:S.125 Water bridges: A:R.34, A:R.34, A:Y.62, A:K.121, A:T.123, A:R.133, A:R.133, A:R.133 Salt bridges: A:R.34, A:R.133 PO4.9: 8 residues within 4Å: Chain B: R.34, R.60, Y.62, D.94, Y.114, S.124, S.125, R.133 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:D.94, B:D.94, B:S.125, B:S.125, B:S.125 Water bridges: B:R.34, B:R.133, B:R.133, B:R.133, B:R.133 Salt bridges: B:R.34, B:R.133 PO4.11: 8 residues within 4Å: Chain C: R.34, R.60, Y.62, D.94, Y.114, S.124, S.125, R.133 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:Y.62, C:S.125, C:S.125 Water bridges: C:R.34, C:Y.62, C:S.124, C:R.133, C:R.133, C:R.133 Salt bridges: C:R.34, C:R.133

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

CL.3: 6 residues within 4Å: Chain A: Y.79, R.83 Chain B: Y.79, R.83 Chain C: Y.79, R.83 Ligand excluded by PLIP

4 x C8E: (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE(Non-functional Binders)

C8E.4: 7 residues within 4Å: Chain A: Y.39, R.41 Chain B: T.149, G.150, V.167, K.181, Y.183 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.407 C8E.5: 7 residues within 4Å: Chain A: T.149, G.150, V.167, K.181, Y.183 Chain C: A.37, Y.39 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:A.37, A:T.149 C8E.6: 10 residues within 4Å: Chain A: V.199, H.200, L.201, L.263, E.264, G.265, A.266, A.276, Y.278, Y.297 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.199, A:L.201 C8E.12: 9 residues within 4Å: Chain B: Y.39, L.407 Chain C: W.73, F.110, T.149, G.150, V.167, K.181, Y.183 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:V.167, C:K.181

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 6 residues within 4Å: Chain A: R.34, E.64, Q.76, N.78, E.95, K.126 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:E.64, A:N.78, A:N.78, A:K.126, A:K.126 Water bridges: A:R.34, A:Q.76, A:Q.76, A:Q.76, A:Q.76 GOL.13: 6 residues within 4Å: Chain C: K.30, R.34, E.64, Q.76, N.78, K.126 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:E.64, C:N.78, C:N.78, C:K.126, C:K.126 Water bridges: C:K.30, C:R.34, C:Q.76

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Moraes, T.F. et al., An arginine ladder in OprP mediates phosphate-specific transfer across the outer membrane. Nat.Struct.Mol.Biol. (2007)

Release Date

2006-12-26

Peptides

Porin P: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Membrane

We predict this structure to be a membrane protein.
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Porin P