1YE9 Oxidoreductase date Dec 28, 2004
title Crystal Structure Of Proteolytically Truncated Catalase Hpii Coli
authors P.C.Loewen, P.Chelikani, X.Carpena, I.Fita, R.Perez-Luque, L.J.Do J.Switala, H.W.Duckworth
compound source
Molecule: Catalase Hpii
Chain: A, B, C, D, I, J, K, L
Fragment: Proteolytic Fragment, Residues 75-300
Ec: 1.11.1.6
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Strain: Mp180
Gene: Kate
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Um255
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pbluescript

Molecule: Catalase Hpii
Chain: E, F, G, H, M, N, O, P
Fragment: Proteolytic Fragment, Residues 309-567
Ec: 1.11.1.6
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Strain: Mp180
Gene: Kate
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pbluescript
symmetry Space Group: P 1 21 1
R_factor 0.217 R_Free 0.269
crystal
cell
length a length b length c angle alpha angle beta angle gamma
111.011 152.888 135.287 90.00 97.54 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand HDD enzyme Oxidoreductase E.C.1.11.1.6 BRENDA
related structures by homologous chain: 1IPH
Gene
Ontology
ChainFunctionProcessComponent
F, N, E, M, O, P, H, G


K, C, L, A, J, B, D, I


Primary referenceCharacterization of a Large Subunit Catalase Truncated by Proteolytic Cleavage(,)., Chelikani P, Carpena X, Perez-Luque R, Donald LJ, Duckworth HW, Switala J, Fita I, Loewen PC, Biochemistry 2005 Apr 19;44(15):5597-5605. PMID:15823018
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (627 Kb) [Save to disk]
  • Biological Unit Coordinates (1ye9.pdb1.gz) 313 Kb
  • Biological Unit Coordinates (1ye9.pdb2.gz) 312 Kb
  • LPC: Ligand-Protein Contacts for 1YE9
  • CSU: Contacts of Structural Units for 1YE9
  • Likely Quarternary Molecular Structure file(s) for 1YE9
  • Structure Factors (868 Kb)
  • Retrieve 1YE9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YE9 from S2C, [Save to disk]
  • Re-refined 1ye9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1YE9 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1YE9
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1YE9, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ye9_I] [1ye9_G] [1ye9_H] [1ye9_K] [1ye9_A] [1ye9_F] [1ye9_E] [1ye9_M] [1ye9_J] [1ye9_D] [1ye9_N] [1ye9] [1ye9_O] [1ye9_B] [1ye9_P] [1ye9_C] [1ye9_L]
  • SWISS-PROT database: [P21179]
  • Domain organization of [CATE_ECOLI] by SWISSPFAM
  • Domain found in 1YE9: [Catalase ] by SMART
  • Other resources with information on 1YE9
  • Community annotation for 1YE9 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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