4I06 Hydrolase date Nov 16, 2012
title Crystal Structure Of Human Arginase-2 Complexed With Inhibit
authors A.Cousido-Siah, A.Mitschler, F.X.Ruiz, D.L.Whitehouse, A.Golebio M.Ji, M.Zhang, P.Beckett, R.Sheeler, M.Andreoli, B.Conway, K.Mahb H.Schroeter, M.C.Van Zandt, A.Podjarny
compound source
Molecule: Arginase-2, Mitochondrial
Chain: A, B, C
Synonym: Kidney-Type Arginase, Non-Hepatic Arginase, Type I Arginase;
Ec: 3.5.3.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Arg2
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet23b
symmetry Space Group: P 42 21 2
R_factor 0.164 R_Free 0.195
crystal
cell
length a length b length c angle alpha angle beta angle gamma
127.805 127.805 159.094 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand BEN, BME, MN, X8A enzyme Hydrolase E.C.3.5.3.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceDiscovery of (R)-2-Amino-6-borono-2-(2-(piperidin-1-yl)ethyl)hexanoic Acid and Congeners As Highly Potent Inhibitors of Human Arginases I and II for Treatment of Myocardial Reperfusion Injury., Van Zandt MC, Whitehouse DL, Golebiowski A, Ji MK, Zhang M, Beckett RP, Jagdmann GE, Ryder TR, Sheeler R, Andreoli M, Conway B, Mahboubi K, D'Angelo G, Mitschler A, Cousido-Siah A, Ruiz FX, Howard EI, Podjarny AD, Schroeter H, J Med Chem. 2013 Mar 28;56(6):2568-80. doi: 10.1021/jm400014c. Epub 2013 Mar 8. PMID:23472952
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (176 Kb) [Save to disk]
  • Biological Unit Coordinates (4i06.pdb1.gz) 169 Kb
  • Biological Unit Coordinates (4i06.pdb2.gz) 60 Kb
  • Biological Unit Coordinates (4i06.pdb3.gz) 59 Kb
  • Biological Unit Coordinates (4i06.pdb4.gz) 59 Kb
  • LPC: Ligand-Protein Contacts for 4I06
  • CSU: Contacts of Structural Units for 4I06
  • Structure Factors (751 Kb)
  • Retrieve 4I06 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4I06 from S2C, [Save to disk]
  • Re-refined 4i06 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4I06 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 4I06
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4I06, from MSDmotif at EBI
  • Fold representative 4i06 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4i06_B] [4i06_A] [4i06_C] [4i06]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4I06
  • Community annotation for 4I06 at PDBWiki (http://pdbwiki.org)

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