3RBF Lyase date Mar 29, 2011
title Crystal Structure Of Human Aromatic L-Amino Acid Decarboxyla In The Apo Form
authors G.Giardina, R.Montioli, S.Gianni, B.Cellini, A.Paiardini, C.Borri Voltattorni, F.Cutruzzola
compound source
Molecule: Aromatic-L-Amino-Acid Decarboxylase
Chain: A, B
Synonym: Aadc, Dopa Decarboxylase, Ddc
Ec: 4.1.1.28
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Aadc, Ddc, Hcg_1811384, Tcag7.584
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm109
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptrchis2a
symmetry Space Group: P 41 21 2
R_factor 0.212 R_Free 0.267
crystal
cell
length a length b length c angle alpha angle beta angle gamma
175.840 175.840 74.960 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand CL, PLP enzyme Lyase E.C.4.1.1.28 BRENDA
Gene HCG
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceOpen conformation of human DOPA decarboxylase reveals the mechanism of PLP addition to Group II decarboxylases., Giardina G, Montioli R, Gianni S, Cellini B, Paiardini A, Voltattorni CB, Cutruzzola F, Proc Natl Acad Sci U S A. 2011 Dec 20;108(51):20514-9. Epub 2011 Dec 5. PMID:22143761
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (296 Kb) [Save to disk]
  • Biological Unit Coordinates (3rbf.pdb1.gz) 289 Kb
  • LPC: Ligand-Protein Contacts for 3RBF
  • CSU: Contacts of Structural Units for 3RBF
  • Structure Factors (1390 Kb)
  • Retrieve 3RBF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3RBF from S2C, [Save to disk]
  • Re-refined 3rbf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3RBF 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 3RBF
  • 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 3RBF, from MSDmotif at EBI
  • Fold representative 3rbf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3rbf] [3rbf_B] [3rbf_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3RBF
  • Community annotation for 3RBF at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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