SMTL ID : 4x04.1

CRYSTAL STRUCTURE OF A TRAP PERIPLASMIC SOLUTE BINDING PROTEIN FROM CITROBACTER KOSERI (CKO_04899, TARGET EFI-510094) WITH BOUND D-glucuronate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-tetramer

Ligands

4 x BDP: beta-D-glucopyranuronic acid(Non-covalent)

BDP.1: 15 residues within 4Å: Chain A: V.31, H.32, E.70, R.86, S.88, S.146, R.149, R.169, Q.171, V.192, N.209, N.210, T.213, E.236 Ligands: CL.2 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:E.70, A:R.86, A:R.86, A:S.88, A:S.146, A:N.209, A:N.210, A:E.236 Water bridges: A:N.38, A:E.70, A:S.146, A:T.213 Salt bridges: A:H.32, A:R.149, A:R.149, A:R.169 BDP.5: 15 residues within 4Å: Chain B: V.31, H.32, E.70, R.86, S.88, S.146, R.149, R.169, Q.171, V.192, N.209, N.210, T.213, E.236 Ligands: CL.6 18 PLIP interactions: 18 interactions with chain B Hydrogen bonds: B:E.70, B:R.86, B:R.86, B:S.88, B:S.146, B:S.146, B:N.209, B:N.210 Water bridges: B:H.32, B:N.38, B:S.88, B:S.88, B:R.149, B:T.213 Salt bridges: B:H.32, B:R.149, B:R.149, B:R.169 BDP.7: 15 residues within 4Å: Chain C: V.31, H.32, E.70, R.86, S.88, S.146, R.149, R.169, Q.171, V.192, N.209, N.210, T.213, E.236 Ligands: CL.8 18 PLIP interactions: 18 interactions with chain C Hydrogen bonds: C:E.70, C:R.86, C:R.86, C:S.88, C:S.146, C:S.146, C:S.146, C:Q.171, C:N.209, C:N.210 Water bridges: C:N.38, C:E.70, C:R.149, C:T.213 Salt bridges: C:H.32, C:R.149, C:R.149, C:R.169 BDP.11: 15 residues within 4Å: Chain D: V.31, H.32, E.70, R.86, S.88, S.146, R.149, R.169, Q.171, V.192, N.209, N.210, T.213, E.236 Ligands: CL.12 18 PLIP interactions: 18 interactions with chain D Hydrogen bonds: D:H.32, D:E.70, D:R.86, D:R.86, D:S.88, D:S.146, D:S.146, D:N.209, D:N.210, D:T.213 Water bridges: D:S.146, D:E.236, D:E.236, D:E.236 Salt bridges: D:H.32, D:R.149, D:R.149, D:R.169

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

CL.2: 6 residues within 4Å: Chain A: D.69, E.70, R.169, G.191, V.192 Ligands: BDP.1 Ligand excluded by PLIP CL.3: 3 residues within 4Å: Chain A: Y.296, K.299 Chain C: R.109 Ligand excluded by PLIP CL.6: 6 residues within 4Å: Chain B: D.69, E.70, R.169, G.191, V.192 Ligands: BDP.5 Ligand excluded by PLIP CL.8: 6 residues within 4Å: Chain C: D.69, E.70, R.169, G.191, V.192 Ligands: BDP.7 Ligand excluded by PLIP CL.9: 4 residues within 4Å: Chain A: V.107, R.109 Chain C: Y.296, K.299 Ligand excluded by PLIP CL.12: 6 residues within 4Å: Chain D: D.69, E.70, R.169, G.191, V.192 Ligands: BDP.11 Ligand excluded by PLIP

2 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 5 residues within 4Å: Chain A: D.69, S.193, E.194 Chain D: D.69, S.193 6 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D, 4 Ligand-Water interactions Metal complexes: A:D.69, D:D.69, H2O.10, H2O.38, H2O.38, H2O.38 MG.10: 1 residues within 4Å: Chain C: D.69 4 PLIP interactions: 1 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:D.69, H2O.19, H2O.19, H2O.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yadava, U. et al., CRYSTAL STRUCTURE OF A TRAP PERIPLASMIC SOLUTE BINDING PROTEIN FROM CITROBACTER KOSERI (CKO_04899, TARGET EFI-510094) WITH BOUND D-glucuronate. To be published

Release Date

2014-12-10

Peptides

solute binding protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

solute binding protein