SMTL ID : 7omt.1

Crystal structure of ProMacrobody 21 with bound maltose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

GLC-GLC.1: 15 residues within 4Å: Chain A: N.129, D.131, K.132, W.179, A.180, D.182, R.183, E.228, E.270, P.271, Y.272, F.273, W.347, M.447, W.457 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.179, A:R.183, A:R.183, A:Y.272 GLC-GLC.5: 15 residues within 4Å: Chain B: N.129, D.131, K.132, W.179, A.180, D.182, R.183, E.228, E.270, P.271, Y.272, F.273, W.347, M.447, W.457 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:W.179, B:R.183, B:R.183, B:E.270, B:Y.272

4 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.2: 5 residues within 4Å: Chain A: Y.40, R.48, W.50, A.53, H.62 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.40 P6G.3: 6 residues within 4Å: Chain A: V.140, K.143, Y.400, T.403, E.405, G.406 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.143 P6G.6: 5 residues within 4Å: Chain B: Y.40, R.48, W.50, A.53, H.62 No protein-ligand interaction detected (PLIP) P6G.7: 6 residues within 4Å: Chain B: V.140, K.143, Y.400, T.403, E.405, G.406 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.143, B:T.403

2 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 2 residues within 4Å: Chain A: D.172 Ligands: MG.8 5 PLIP interactions: 5 Ligand-Water interactions Metal complexes: H2O.1, H2O.2, H2O.2, H2O.6, H2O.12 MG.8: 2 residues within 4Å: Chain B: D.172 Ligands: MG.4 5 PLIP interactions: 5 Ligand-Water interactions Metal complexes: H2O.6, H2O.6, H2O.8, H2O.8, H2O.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Botte, M. et al., Cryo-EM structures of a LptDE transporter in complex with Pro-macrobodies offer insight into lipopolysaccharide translocation. Nat Commun (2022)

Release Date

2022-05-04

Peptides

ProMacrobody 21: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ProMacrobody 21

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