1E9Y Hydrolase date Nov 01, 2000
title Crystal Structure Of Helicobacter Pylori Urease In Complex With Acetohydroxamic Acid
authors N.-C.Ha, S.-T.Oh, B.-H.Oh
compound source
Molecule: Urease Alpha Subunit
Chain: A
Engineered: Yes
Ec: 3.5.1.5
Organism_scientific: Helicobacter Pylori
Expression_system: Escherichia Coli

Molecule: Urease Beta Subunit
Chain: B
Engineered: Yes

Organism_scientific: Helicobacter Pylori
Expression_system: Escherichia Coli
symmetry Space Group: I 2 3
R_factor 0.213
crystal
cell
length a length b length c angle alpha angle beta angle gamma
178.160 178.160 178.160 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.0 Å
ligand HAE, KCX, NI enzyme Urease. Hydrolase E.C.3.5.1.5 BRENDA
similarity In the n-terminal section; belongs to the urease gamma subunit family. Belongs to the urease family. In the c-terminal section; belongs to the urease beta subunit family.[Amidohydro_1]
subunit Heterohexamer of 3 alpha and 3 beta subunits. Four heterohexamers assemble to form a 16 nm spherical complex.
catalytic activ. Urea + h(2)o = co(2) + 2 nh(3).
post-translat. modifications Lys-219 is carbamylated. The carbamoyl group provides the ligands for the two nickel ions (by similarity).
subcellular loc. Cytoplasm.
genes ureA, ureB, ureC (B. pasteurii); ureA, ureB (H. pylori); ureA, ureB, ureC (K. aerogenes)
Gene
Ontology
ChainFunctionProcessComponent
A
  • urease activity
  • nickel ion binding
  • hydrolase activity
  • nitrogen compound metabolic ...
  • cytoplasm
  • B
  • urease activity
  • nickel ion binding
  • hydrolase activity
  • metal ion binding
  • nitrogen compound metabolic ...
  • urea metabolic process

  • Primary referenceSupramolecular assembly and acid resistance of Helicobacter pylori urease., Ha NC, Oh ST, Sung JY, Cha KA, Lee MH, Oh BH, Nat Struct Biol 2001 Jun;8(6):505-9. PMID:11373617
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (149 Kb) [Save to disk]
  • Biological Unit Coordinates (1e9y.pdb1.gz) 1491 Kb
  • CSU: Contacts of Structural Units for 1E9Y
  • Likely Quarternary Molecular Structure file(s) for 1E9Y
  • Retrieve 1E9Y in mmCIF format [Save to disk]
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  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1e9ya2, region A:1-105 [Jmol] [rasmolscript] [script source]
        - Domain d1e9ya1, region A:106-238 [Jmol] [rasmolscript] [script source]
        - Domain d1e9yb1, region B:1-131,B:432-480 [Jmol] [rasmolscript] [script source]
        - Domain d1e9yb2, region B:132-431,B:481-569 [Jmol] [rasmolscript] [script source]
  • Fold representative 1e9y from FSSP and Dali (Families of Structurally Similar Proteins)
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  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1e9y_A] [1e9y_B]
  • Other resources with information on 1E9Y
  • InterPro: IPR002019 , IPR005848 , IPR008223 , IPR006680 , IPR008295 , IPR002026 , IPR011612
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