1GMZ	Hydrolase	date	Sep 27, 2001
title	Crystal Structure Of The D49 Phospholipase A2 Piratoxin III Bothrops Pirajai.
authors	D.J.Rigden, W.H.Lee, I.Polikarpov
compound		source
Molecule: Phospholipase A2 Chain: A, B Ec: 3.1.1.4		Organism_scientific: Bothrops Pirajai Organism_common: Snake Organism_taxid: 113192 Secretion: Venom
symmetry	Space Group: C 1 2 1	R_factor 0.201 R_Free 0.255
crystal cell	length a length b length c angle alpha angle beta angle gamma 61.019 100.937 48.333 90.00 123.76 90.00
method	X-Ray Diffraction	resolution	2.40 Å
ligand	IPA	enzyme	Hydrolase E.C.3.1.1.4 BRENDA
related structures	by homologous chain: 1PC9, 1TP2, 1Y38
Gene Ontology	Chain Function Process Component A, B
Primary reference	The structure of the D49 phospholipase A2 piratoxin III from Bothrops pirajai reveals unprecedented structural displacement of the calcium-binding loop: possiblerelationship to cooperative substrate binding., Rigden DJ, Hwa LW, Marangoni S, Toyama MH, Polikarpov I, Acta Crystallogr D Biol Crystallogr 2003 Feb;59(Pt 2):255-62. PMID:12554936

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (46 Kb) [Save to disk] Biological Unit Coordinates (1gmz.pdb1.gz) 41 Kb Biological Unit Coordinates (1gmz.pdb2.gz) 41 Kb LPC: Ligand-Protein Contacts for 1GMZ CSU: Contacts of Structural Units for 1GMZ Likely Quarternary Molecular Structure file(s) for 1GMZ Structure Factors (48 Kb) Retrieve 1GMZ in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1GMZ from S2C, [Save to disk] Re-refined 1gmz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1GMZ 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 1GMZ

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 1GMZ, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1gmza_, region A [Jmol] [rasmolscript] [script source]     - Domain d1gmzb_, region B [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: [1gmz_B] [1gmz_A] [1gmz] SWISS-PROT database: [P58464] Domain organization of [PA23_BOTPI] by SWISSPFAM Domain found in 1GMZ: [PA2c ] by SMART

Other resources with information on 1GMZ

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

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Images from IMB Jena Image Library of Biological Macromolecules.

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