2ODJ	Membrane Protein	date	Dec 22, 2006
title	Crystal Structure Of The Outer Membrane Protein Oprd From Ps Aeruginosa
authors	S.Biswas, B.Van Den Berg
compound		source
Molecule: Porin D Chain: A, B Synonym: Outer Membrane Protein D2, Imipenembasic Amino Ac Specific Outer Membrane Pore; Ec: 3.4.21.- Engineered: Yes		Organism_scientific: Pseudomonas Aeruginosa Organism_taxid: 208964 Strain: Pao1 Gene: Oprd Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: C43 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pb22
symmetry	Space Group: C 1 2 1	R_factor 0.248 R_Free 0.315
crystal cell	length a length b length c angle alpha angle beta angle gamma 111.370 97.525 95.788 90.00 119.63 90.00
method	X-Ray Diffraction	resolution	2.90 Å
ligand	C8E, MSE	enzyme	Hydrolase E.C.3.4.21 BRENDA
Gene Ontology	Chain Function Process Component A, B channel activity porin activity
Primary reference	Structural insight into OprD substrate specificity., Biswas S, Mohammad MM, Patel DR, Movileanu L, van den Berg B, Nat Struct Mol Biol. 2007 Nov;14(11):1108-9. Epub 2007 Oct 21. PMID:17952093

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (132 Kb) [Save to disk] Biological Unit Coordinates (2odj.pdb1.gz) 64 Kb Biological Unit Coordinates (2odj.pdb2.gz) 63 Kb LPC: Ligand-Protein Contacts for 2ODJ CSU: Contacts of Structural Units for 2ODJ Likely Quarternary Molecular Structure file(s) for 2ODJ Structure Factors (183 Kb) Retrieve 2ODJ in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2ODJ from S2C, [Save to disk] Re-refined 2odj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2ODJ 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 2ODJ

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 2ODJ, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2odj_A] [2odj] [2odj_B] SWISS-PROT database: [P32722] Belongs to the outer membrane porin (opr) family according to TCDB. Domain organization of [PORD_PSEAE] by SWISSPFAM

Other resources with information on 2ODJ

Community annotation for 2ODJ at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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