SMTL ID : 6bea.1

Crystal structure of the autotransporter UpaB from E. coli strain CFT073

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.97 Å

Oligo State

monomer

Ligands

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: F.67, E.69, V.102, S.129, E.131 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.69, A:S.129, A:S.129 Water bridges: A:T.99, A:E.131 GOL.2: 5 residues within 4Å: Chain A: T.143, D.183, S.184, N.185, G.213 No protein-ligand interaction detected (PLIP) GOL.3: 6 residues within 4Å: Chain A: D.247, S.248, T.249, R.276, Y.278 Ligands: P6G.5 1 PLIP interactions: 1 interactions with chain A Water bridges: A:T.249 GOL.4: 4 residues within 4Å: Chain A: T.62, V.63, N.64, Q.65 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.64, A:Q.65 Water bridges: A:Q.65 GOL.10: 3 residues within 4Å: Chain A: K.309, G.330, S.331 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.309, A:K.309, A:S.331

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

P6G.5: 5 residues within 4Å: Chain A: R.276, S.277, S.303, V.305 Ligands: GOL.3 No protein-ligand interaction detected (PLIP)

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.6: 1 residues within 4Å: Chain A: S.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.6 Water bridges: A:T.7

1 x CA: CALCIUM ION(Non-covalent)

CA.7: 4 residues within 4Å: Chain A: K.222, G.281, N.282, K.307 No protein-ligand interaction detected (PLIP)

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

CL.8: 4 residues within 4Å: Chain A: G.170, G.198, N.199, K.200 Ligand excluded by PLIP

1 x NA: SODIUM ION(Non-functional Binders)

NA.9: 4 residues within 4Å: Chain A: T.20, T.21, N.49, T.51 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.20, A:T.20, A:T.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Paxman, J.J. et al., Unique structural features of a bacterial autotransporter adhesin suggest mechanisms for interaction with host macromolecules. Nat Commun (2019)

Release Date

2019-04-10

Peptides

Autotransporter protein UpaB: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Autotransporter protein UpaB