SMTL ID : 3ux4.1

Crystal structure of the urea channel from the human gastric pathogen Helicobacter pylori

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.26 Å

Oligo State

homo-hexamer

Ligands

18 x XP4: 1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHATE(Non-functional Binders)(Non-covalent)

XP4.1: 3 residues within 4Å: Ligands: XP4.3, XP4.6, XP4.8 Ligand excluded by PLIP XP4.2: 3 residues within 4Å: Ligands: XP4.7, XP4.11, XP4.18 Ligand excluded by PLIP XP4.3: 15 residues within 4Å: Chain A: K.27, F.34, F.35, L.39, V.42, L.95, T.102 Chain B: I.41, I.99, F.103 Ligands: XP4.1, XP4.4, XP4.6, XP4.7, XP4.8 Ligand excluded by PLIP XP4.4: 14 residues within 4Å: Chain B: K.27, F.34, F.35, G.38, L.39, V.42, T.102 Chain F: I.41, I.99, F.103 Ligands: XP4.3, XP4.5, XP4.6, XP4.17 Ligand excluded by PLIP XP4.5: 4 residues within 4Å: Chain B: V.42 Chain F: F.103 Ligands: XP4.4, XP4.17 Ligand excluded by PLIP XP4.6: 3 residues within 4Å: Ligands: XP4.1, XP4.3, XP4.4 Ligand excluded by PLIP XP4.7: 8 residues within 4Å: Chain B: I.41, V.45, V.46 Chain F: V.45, T.49 Ligands: XP4.2, XP4.3, XP4.18 Ligand excluded by PLIP XP4.8: 13 residues within 4Å: Chain A: F.103 Chain C: K.27, F.34, F.35, G.38, L.39, L.95, T.102, F.103 Ligands: XP4.1, XP4.3, XP4.13, XP4.14 Ligand excluded by PLIP XP4.9: 4 residues within 4Å: Chain C: V.42, V.45 Ligands: XP4.11, XP4.16 Ligand excluded by PLIP XP4.10: 3 residues within 4Å: Ligands: XP4.12, XP4.15, XP4.17 Ligand excluded by PLIP XP4.11: 3 residues within 4Å: Ligands: XP4.2, XP4.9, XP4.16 Ligand excluded by PLIP XP4.12: 15 residues within 4Å: Chain D: K.27, F.34, F.35, L.39, V.42, L.95, T.102 Chain E: I.41, I.99, F.103 Ligands: XP4.10, XP4.13, XP4.15, XP4.16, XP4.17 Ligand excluded by PLIP XP4.13: 14 residues within 4Å: Chain C: I.41, I.99, F.103 Chain E: K.27, F.34, F.35, G.38, L.39, V.42, T.102 Ligands: XP4.8, XP4.12, XP4.14, XP4.15 Ligand excluded by PLIP XP4.14: 4 residues within 4Å: Chain C: F.103 Chain E: V.42 Ligands: XP4.8, XP4.13 Ligand excluded by PLIP XP4.15: 3 residues within 4Å: Ligands: XP4.10, XP4.12, XP4.13 Ligand excluded by PLIP XP4.16: 8 residues within 4Å: Chain C: V.45, T.49 Chain E: I.41, V.45, V.46 Ligands: XP4.9, XP4.11, XP4.12 Ligand excluded by PLIP XP4.17: 13 residues within 4Å: Chain D: F.103 Chain F: K.27, F.34, F.35, G.38, L.39, L.95, T.102, F.103 Ligands: XP4.4, XP4.5, XP4.10, XP4.12 Ligand excluded by PLIP XP4.18: 4 residues within 4Å: Chain F: V.42, V.45 Ligands: XP4.2, XP4.7 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Strugatsky, D. et al., Structure of the proton-gated urea channel from the gastric pathogen Helicobacter pylori. Nature (2012)

Release Date

2012-12-19

Peptides

Acid-activated urea channel: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

Membrane

We predict this structure to be a membrane protein.
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Acid-activated urea channel

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