2DWK	Protein Binding	date	Aug 15, 2006
title	Crystal Structure Of The Run Domain Of Mouse Rap2 Interacting Protein X
authors	M.Kukimoto-Niino, K.Murayama, M.Shirouzu, S.Yokoyama, Riken Structural Genomicsproteomics Initiative (Rsgi)
compound		source
Molecule: Protein Rufy3 Chain: A Fragment: Run Domain Synonym: Rap2-Interacting Protein X, Ripx Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Gene: Rufy3, D5bwg0860e, Ripx Expression_system: Cell Free Synthesis Expression_system_vector_type: Plasmid Expression_system_plasmid: Pk011025-09 Other_details: Cell Free Protein Synthesis
symmetry	Space Group: P 64 2 2	R_factor 0.205 R_Free 0.231
crystal cell	length a length b length c angle alpha angle beta angle gamma 86.523 86.523 106.582 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	MSE	enzyme
note	2DWK supersedes 1WUS
Primary reference	Crystal Structure of the RUN Domain of the RAP2-interacting Protein x., Kukimoto-Niino M, Takagi T, Akasaka R, Murayama K, Uchikubo-Kamo T, Terada T, Inoue M, Watanabe S, Tanaka A, Hayashizaki Y, Kigawa T, Shirouzu M, Yokoyama S, J Biol Chem. 2006 Oct 20;281(42):31843-31853. Epub 2006 Aug 23. PMID:16928684

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (32 Kb) [Save to disk] Biological Unit Coordinates (2dwk.pdb1.gz) 28 Kb LPC: Ligand-Protein Contacts for 2DWK CSU: Contacts of Structural Units for 2DWK Likely Quarternary Molecular Structure file(s) for 2DWK Structure Factors (137 Kb) Retrieve 2DWK in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2DWK from S2C, [Save to disk] Re-refined 2dwk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2DWK 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 2DWK

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 2DWK, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2dwk_A] [2dwk] SWISS-PROT database: [Q9D394] Domain organization of [RUFY3_MOUSE] by SWISSPFAM Domain found in 2DWK: [RUN ] by SMART

Other resources with information on 2DWK

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

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