1XFY	Lyase Metal Binding Protein	date	Sep 15, 2004
title	Crystal Structure Of Anthrax Edema Factor (Ef) In Complex With Calmodulin
authors	Y.Shen, N.L.Zhukovskaya, Q.Guo, J.Florian, W.J.Tang
compound		source
Molecule: Calmodulin-Sensitive Adenylate Cyclase Chain: A, B, C, D, E, F Synonym: Atp Pyrophosphate-Lyase, Adenylyl Cyclase, Edema Factor, Ef, Anthrax Edema Toxin Adenylate Cyclase Component; Ec: 4.6.1.1 Engineered: Yes		Organism_scientific: Bacillus Anthracis Organism_taxid: 1392 Gene: Cya Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Calmodulin 2 Chain: O, P, Q, R, S, T Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: C 1 2 1	R_factor 0.269 R_Free 0.289
crystal cell	length a length b length c angle alpha angle beta angle gamma 315.622 182.044 141.024 90.00 89.93 90.00
method	X-Ray Diffraction	resolution	3.30 Å
ligand	CA, MG	enzyme	Lyase E.C.4.6.1.1 BRENDA
Gene Ontology	Chain Function Process Component F, A, E, B, C, D nucleotide binding adenylate cyclase activity protein binding calmodulin binding ATP binding lyase activity metal ion binding cAMP biosynthetic process pathogenesis extracellular region S, O, T, P, Q, R calcium ion binding protein binding protein domain specific bind... titin binding thioesterase binding N-terminal myristoylation do... phospholipase binding phosphatidylinositol 3-kinas... ion channel binding metal ion binding calcium-dependent protein bi... protein phosphatase activato... response to amphetamine regulation of heart rate platelet degranulation detection of calcium ion carbohydrate metabolic proce... glycogen catabolic process glucose metabolic process muscle contraction signal transduction epidermal growth factor rece... G-protein coupled receptor s... activation of phospholipase ... synaptic transmission blood coagulation fibroblast growth factor rec... regulation of release of seq... regulation of cardiac muscle... cellular membrane organizati... platelet activation positive regulation of cycli... regulation of cytokinesis positive regulation of phosp... positive regulation of prote... inositol phosphate metabolic... small molecule metabolic pro... innate immune response nitric oxide metabolic proce... neurotrophin TRK receptor si... regulation of nitric-oxide s... positive regulation of cycli... response to corticosterone s... response to calcium ion regulation of cardiac muscle... negative regulation of ryano... positive regulation of ryano... regulation of cell communica... spindle pole extracellular region nucleoplasm cytoplasm centrosome spindle cytosol cytoskeleton spindle microtubule plasma membrane sarcomere calcium channel complex
Primary reference	Calcium-independent calmodulin binding and two-metal-ion catalytic mechanism of anthrax edema factor., Shen Y, Zhukovskaya NL, Guo Q, Florian J, Tang WJ, EMBO J 2005 Mar 9;24(5):929-41. Epub 2005 Feb 17. PMID:15719022

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (883 Kb) [Save to disk] Biological Unit Coordinates (1xfy.pdb1.gz) 153 Kb Biological Unit Coordinates (1xfy.pdb2.gz) 152 Kb Biological Unit Coordinates (1xfy.pdb3.gz) 152 Kb Biological Unit Coordinates (1xfy.pdb4.gz) 152 Kb Biological Unit Coordinates (1xfy.pdb5.gz) 153 Kb Biological Unit Coordinates (1xfy.pdb6.gz) 153 Kb LPC: Ligand-Protein Contacts for 1XFY CSU: Contacts of Structural Units for 1XFY Likely Quarternary Molecular Structure file(s) for 1XFY Structure Factors (1451 Kb) Retrieve 1XFY in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1XFY from S2C, [Save to disk] Re-refined 1xfy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1XFY 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 1XFY

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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 1XFY, from MSDmotif at EBI Fold representative 1xfy from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1xfy_A] [1xfy_B] [1xfy_C] [1xfy_D] [1xfy_E] [1xfy_F] [1xfy_O] [1xfy_P] [1xfy_Q] [1xfy_R] [1xfy_S] [1xfy_T] SWISS-PROT database: [P62158] [P40136] Belongs to the animal calmodulin-dependent e.r. secretion pathway (csp) family according to TCDB. Domain organization of [CALM_HUMAN] [CYAA_BACAN] by SWISSPFAM Domain found in 1XFY: [EFh ] by SMART Alignments of the sequence of 1XFY with the sequences similar proteins can be viewed for 1XFY's classification [CALM_HUMAN] [CYAA_BACAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [CALM_HUMAN] [CYAA_BACAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 1XFY

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

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