3ECR	Transferase	date	Sep 01, 2008
title	Structure Of Human Porphobilinogen Deaminase
authors	G.Song, Y.Li, C.Cheng, Y.Zhao, A.Gao, R.Zhang, A.Joachimiak, N.Shaw
compound		source
Molecule: Porphobilinogen Deaminase Chain: A, B Synonym: Pbg-D, Pre-Uroporphyrinogen Synthase, Hydroxymethy Synthase, Hmbs; Ec: 2.5.1.61 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hmbs, Pbgd, Ups Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21de3 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28a
symmetry	Space Group: P 21 21 21	R_factor 0.232 R_Free 0.271
crystal cell	length a length b length c angle alpha angle beta angle gamma 71.610 81.061 109.211 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.18 Å
ligand	DPM	enzyme	Transferase E.C.2.5.1.61 BRENDA
Gene Ontology	Chain Function Process Component A, B hydroxymethylbilane synthase...
Primary reference	Structural insight into acute intermittent porphyria., Song G, Li Y, Cheng C, Zhao Y, Gao A, Zhang R, Joachimiak A, Shaw N, Liu ZJ, FASEB J. 2009 Feb;23(2):396-404. Epub 2008 Oct 20. PMID:18936296

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (105 Kb) [Save to disk] Biological Unit Coordinates (3ecr.pdb1.gz) 51 Kb Biological Unit Coordinates (3ecr.pdb2.gz) 50 Kb LPC: Ligand-Protein Contacts for 3ECR CSU: Contacts of Structural Units for 3ECR Likely Quarternary Molecular Structure file(s) for 3ECR Structure Factors (232 Kb) Retrieve 3ECR in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3ECR from S2C, [Save to disk] Re-refined 3ecr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3ECR 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 3ECR

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 3ECR, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3ecr] [3ecr_B] [3ecr_A] SWISS-PROT database: [P08397] Domain organization of [HEM3_HUMAN] by SWISSPFAM

Other resources with information on 3ECR

Community annotation for 3ECR at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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