1IBD	Oxidoreductase	date	Mar 28, 2001
title	X-Ray 3d Structure Of P.Leiognathi Cu,Zn Sod Mutant V29a
authors	M.E.Stroppolo, A.Pesce, M.D'Orazio, P.O'Neill, D.Bordo, C.Rosano, A.Battistoni, M.Bolognesi, A.Desideri
compound		source
Molecule: Cu,Zn Superoxide Dismutase Chain: A Ec: 1.15.1.1 Engineered: Yes Mutation: Yes		Organism_scientific: Photobacterium Leiognathi Organism_taxid: 658 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: H 3 2	R_factor 0.214 R_Free 0.269
crystal cell	length a length b length c angle alpha angle beta angle gamma 85.938 85.938 98.787 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	CU, ZN	enzyme	Oxidoreductase E.C.1.15.1.1 BRENDA
related structures	by homologous chain: 1IBH, 2APS
Gene Ontology	Chain Function Process Component A superoxide dismutase activit... antioxidant activity
Primary reference	Single mutations at the subunit interface modulate copper reactivity in Photobacterium leiognathi Cu,Zn superoxide dismutase., Stroppolo ME, Pesce A, D'Orazio M, O'Neill P, Bordo D, Rosano C, Milani M, Battistoni A, Bolognesi M, Desideri A, J Mol Biol 2001 May 4;308(3):555-63. PMID:11327787

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (29 Kb) [Save to disk] Biological Unit Coordinates (1ibd.pdb1.gz) 48 Kb LPC: Ligand-Protein Contacts for 1IBD CSU: Contacts of Structural Units for 1IBD Likely Quarternary Molecular Structure file(s) for 1IBD Structure Factors (74 Kb) Retrieve 1IBD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1IBD from S2C, [Save to disk] Re-refined 1ibd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1IBD 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 1IBD

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 1IBD, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1ibda_, region A [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1ibd_A] [1ibd] SWISS-PROT database: [P00446] Domain organization of [SODC_PHOLE] by SWISSPFAM

Other resources with information on 1IBD

Community annotation for 1IBD at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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