1YG2	Transcription	date	Jan 04, 2005
title	Structure Of The Vibrio Cholerae Virulence Activator Apha
authors	R.S.De Silva, G.Kovacikova, W.Lin, R.T.Taylor, K.Skorupski, F.J.K
compound		source
Molecule: Gene Activator Apha Chain: A Synonym: Hypothetical Protein Vc2647 Engineered: Yes		Organism_scientific: Vibrio Cholerae Organism_taxid: 666 Strain: N16961 Serogroup O1 Gene: Apha Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Er2566 Expression_system_vector_type: Impact-Cn Fusion System Expression_system_plasmid: Pwel18
symmetry	Space Group: C 2 2 21	R_factor 0.233 R_Free 0.280
crystal cell	length a length b length c angle alpha angle beta angle gamma 77.500 94.650 59.640 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.20 Å
Gene Ontology	Chain Function Process Component A
Primary reference	Crystal structure of the virulence gene activator AphA from Vibrio cholerae reveals it is a novel member of the winged helix transcription factor superfamily., De Silva RS, Kovacikova G, Lin W, Taylor RK, Skorupski K, Kull FJ, J Biol Chem 2005 Apr 8;280(14):13779-83. Epub 2005 Jan 12. PMID:15647287

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (33 Kb) [Save to disk] Biological Unit Coordinates (1yg2.pdb1.gz) 58 Kb CSU: Contacts of Structural Units for 1YG2 Likely Quarternary Molecular Structure file(s) for 1YG2 Structure Factors (105 Kb) Retrieve 1YG2 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1YG2 from S2C, [Save to disk] Re-refined 1yg2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1YG2 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 1YG2

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 1YG2, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1yg2a_, region A [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1yg2_A] [1yg2] SWISS-PROT database: [Q9X399] Domain organization of [Q9X399_VIBCH] by SWISSPFAM

Other resources with information on 1YG2

Community annotation for 1YG2 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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