2V89	Protein Binding	date	Aug 03, 2007
title	Crystal Structure Of Rag2-Phd Finger In Complex With H3k4me3 At 1.1a Resolution
authors	S.Ramon-Maiques, W.Yang
compound		source
Molecule: Vdj Recombination-Activating Protein 2 Chain: A, B Fragment: Residues 414-487 Synonym: Rag2, Rag2-Phd Finger Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_plasmid: Pgex-6p-1
Molecule: Histone H3 Chain: D, E Fragment: H3 (1-21), Biotinylated At C-Terminus Synonym: H3k4me3 Peptide Engineered: Yes Other_details: Tri-Methylated K4		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
symmetry	Space Group: C 1 2 1	R_factor R_Free
crystal cell	length a length b length c angle alpha angle beta angle gamma 75.978 46.807 56.808 90.00 106.78 90.00
method	X-Ray Diffraction	resolution	1.10 Å
ligand	M3L, ZN	enzyme
Gene Ontology	Chain Function Process Component A, B
Primary reference	RAG2 PHD finger couples histone H3 lysine 4 trimethylation with V(D)J recombination., Matthews AG, Kuo AJ, Ramon-Maiques S, Han S, Champagne KS, Ivanov D, Gallardo M, Carney D, Cheung P, Ciccone DN, Walter KL, Utz PJ, Shi Y, Kutateladze TG, Yang W, Gozani O, Oettinger MA, Nature. 2007 Dec 13;450(7172):1106-10. Epub 2007 Nov 21. PMID:18033247

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (65 Kb) [Save to disk] Biological Unit Coordinates (2v89.pdb1.gz) 31 Kb Biological Unit Coordinates (2v89.pdb2.gz) 29 Kb LPC: Ligand-Protein Contacts for 2V89 CSU: Contacts of Structural Units for 2V89 Likely Quarternary Molecular Structure file(s) for 2V89 Structure Factors (608 Kb) Retrieve 2V89 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2V89 from S2C, [Save to disk] Re-refined 2v89 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2V89 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 2V89

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2V89, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2v89_A] [2v89_B] [2v89] [2v89_D] [2v89_E] SWISS-PROT database: [P21784] Domain organization of [RAG2_MOUSE] by SWISSPFAM

Other resources with information on 2V89

Community annotation for 2V89 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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