SMTL ID : 3sex.1

Ni-mediated Dimer of Maltose-binding Protein A216H/K220H by Synthetic Symmetrization (Form II)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC.1: 13 residues within 4Å: Chain A: K.16, W.63, A.64, D.66, R.67, E.112, E.154, P.155, Y.156, F.157, W.231, M.331, W.341 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.63, A:R.67, A:R.67, A:Y.156 GLC-GLC.2: 13 residues within 4Å: Chain B: K.16, W.63, A.64, D.66, R.67, E.112, E.154, P.155, Y.156, F.157, W.231, M.331, W.341 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:W.63, B:R.67, B:R.67, B:Y.156

26 x IOD: IODIDE ION(Non-functional Binders)

IOD.3: 1 residues within 4Å: Chain A: V.245 Ligand excluded by PLIP IOD.4: 2 residues within 4Å: Chain A: N.151, Y.211 Ligand excluded by PLIP IOD.5: 1 residues within 4Å: Chain A: G.57 Ligand excluded by PLIP IOD.6: 2 residues within 4Å: Chain A: A.169, F.259 Ligand excluded by PLIP IOD.7: 1 residues within 4Å: Chain B: E.222 Ligand excluded by PLIP IOD.8: 1 residues within 4Å: Chain A: K.27 Ligand excluded by PLIP IOD.9: 1 residues within 4Å: Chain A: N.219 Ligand excluded by PLIP IOD.10: 2 residues within 4Å: Chain A: A.363, T.367 Ligand excluded by PLIP IOD.11: 2 residues within 4Å: Chain A: N.13, K.43 Ligand excluded by PLIP IOD.12: 3 residues within 4Å: Chain A: N.350 Chain B: R.355 Ligands: IOD.25 Ligand excluded by PLIP IOD.13: 4 residues within 4Å: Chain A: P.49, G.70, Y.71, S.74 Ligand excluded by PLIP IOD.16: 1 residues within 4Å: Chain B: E.323 Ligand excluded by PLIP IOD.17: 2 residues within 4Å: Chain B: P.92, F.93 Ligand excluded by PLIP IOD.18: 2 residues within 4Å: Chain B: A.169, F.259 Ligand excluded by PLIP IOD.19: 2 residues within 4Å: Chain B: V.245, R.317 Ligand excluded by PLIP IOD.20: 2 residues within 4Å: Chain A: K.145, E.222 Ligand excluded by PLIP IOD.21: 3 residues within 4Å: Chain B: N.151, D.210, Y.211 Ligand excluded by PLIP IOD.22: 1 residues within 4Å: Chain B: G.57 Ligand excluded by PLIP IOD.23: 2 residues within 4Å: Chain B: N.186, G.188 Ligand excluded by PLIP IOD.24: 1 residues within 4Å: Chain B: N.174 Ligand excluded by PLIP IOD.25: 2 residues within 4Å: Chain A: R.355 Ligands: IOD.12 Ligand excluded by PLIP IOD.26: 1 residues within 4Å: Chain B: N.219 Ligand excluded by PLIP IOD.27: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.28: 2 residues within 4Å: Chain B: G.20, E.23 Ligand excluded by PLIP IOD.29: 2 residues within 4Å: Chain B: K.203, M.205 Ligand excluded by PLIP IOD.30: 2 residues within 4Å: Chain B: P.335, Q.336 Ligand excluded by PLIP

2 x NI: NICKEL (II) ION(Non-covalent)

NI.14: 3 residues within 4Å: Chain A: H.40 Chain B: H.216, E.222 6 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:H.40, A:H.40, B:H.216, B:E.222, H2O.12, H2O.12 NI.15: 3 residues within 4Å: Chain A: H.216, E.222 Chain B: H.40 6 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:H.40, B:H.40, A:H.216, A:E.222, H2O.2, H2O.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Laganowsky, A. et al., An approach to crystallizing proteins by metal-mediated synthetic symmetrization. Protein Sci. (2011)

Release Date

2011-09-21

Peptides

Maltose-binding periplasmic protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Maltose-binding periplasmic protein

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