SMTL ID : 4pr7.1

KdgM porin in complex with disordered oligogalacturonate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x ADA- ADA- ADA- ADA- ADA: alpha-D-galactopyranuronic acid-(1-4)-alpha-D-galactopyranuronic acid-(1-4)-alpha-D-galactopyranuronic acid-(1-4)-alpha-D-galactopyranuronic acid-(1-4)-alpha-D-galactopyranuronic acid(Non-covalent)

ADA-ADA-ADA-ADA-ADA.1: 18 residues within 4Å: Chain A: R.6, K.18, R.20, L.22, R.26, E.36, K.38, N.88, N.90, R.92, Y.94, R.96, R.110, R.112, K.116, E.153, K.155, R.209 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.18, A:K.18, A:N.88, A:N.90 Salt bridges: A:K.116, A:K.155

4 x OCT: N-OCTANE(Non-covalent)

OCT.2: 3 residues within 4Å: Chain A: W.186, V.212, Y.214 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.186, A:V.212, A:Y.214 OCT.3: 3 residues within 4Å: Chain A: I.23, S.35 Ligands: OCT.4 No protein-ligand interaction detected (PLIP) OCT.4: 5 residues within 4Å: Chain A: V.62, A.64, F.80 Ligands: OCT.3, C8E.7 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.62, A:A.64, A:F.80 OCT.5: 6 residues within 4Å: Chain A: G.79, F.80, Y.91, P.93, Y.94, P.113 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.80

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

C8E.6: 2 residues within 4Å: Chain A: L.95, Y.132 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.132 C8E.7: 3 residues within 4Å: Chain A: F.27, L.33 Ligands: OCT.4 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.27, A:L.33

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hutter, C.A. et al., Structure of the oligogalacturonate-specific KdgM porin. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-06-11

Peptides

Oligogalacturonate-specific porin KdgM: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Oligogalacturonate-specific porin KdgM

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