2V88	Protein Binding	date	Aug 03, 2007
title	Crystal Structure Of Rag2-Phd Finger In Complex With H3r2me2 Peptide
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_vector_type: Plasmid Expression_system_plasmid: Pgex-6p-1
Molecule: H3r2me2sk4me3 Peptide Chain: D, F Fragment: H3 (1-21), Biotinylated At C-Terminus Engineered: Yes Other_details: Symmetric Di-Methylated R2 And Di-Methylated		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
symmetry	Space Group: P 1 21 1	R_factor 0.196 R_Free 0.232
crystal cell	length a length b length c angle alpha angle beta angle gamma 36.200 46.685 56.869 90.00 97.20 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	2MR, MLY, ZN	enzyme
Gene Ontology	Chain Function Process Component A, B
Primary reference	The plant homeodomain finger of RAG2 recognizes histone H3 methylated at both lysine-4 and arginine-2., Ramon-Maiques S, Kuo AJ, Carney D, Matthews AG, Oettinger MA, Gozani O, Yang W, Proc Natl Acad Sci U S A. 2007 Nov 27;104(48):18993-8. Epub 2007 Nov 19. PMID:18025461

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (39 Kb) [Save to disk] Biological Unit Coordinates (2v88.pdb1.gz) 18 Kb Biological Unit Coordinates (2v88.pdb2.gz) 17 Kb LPC: Ligand-Protein Contacts for 2V88 CSU: Contacts of Structural Units for 2V88 Likely Quarternary Molecular Structure file(s) for 2V88 Structure Factors (104 Kb) Retrieve 2V88 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2V88 from S2C, [Save to disk] Re-refined 2v88 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2V88 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 2V88

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 2V88, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2v88] [2v88_B] [2v88_A] [2v88_F] [2v88_D] SWISS-PROT database: [P21784] Domain organization of [RAG2_MOUSE] by SWISSPFAM

Other resources with information on 2V88

Community annotation for 2V88 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---