2P5B	Metal Binding Protein	date	Mar 14, 2007
title	The Complex Structure Of Jmjd2a And Trimethylated H3k36 Pept
authors	G.Zhang, Z.Chen, J.Zang, X.Hong, Y.Shi
compound		source
Molecule: Jmjc Domain-Containing Histone Demethylation Prot Chain: A, B Fragment: Catalytic Core Synonym: Jumonji Domain-Containing Protein 2a Ec: 1.14.11.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Jmjd2a, Jhdm3a, Jmjd2, Kiaa0677 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Rosetta Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex 4t2
Molecule: Histone H3 Chain: I, J Engineered: Yes		Synthetic: Yes
symmetry	Space Group: P 21 21 2	R_factor 0.238 R_Free 0.263
crystal cell	length a length b length c angle alpha angle beta angle gamma 100.915 150.844 57.346 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.99 Å
ligand	FE2, M3L, OGA, OXY, ZN BindingDB	enzyme	Oxidoreductase E.C.1.14.11 BRENDA
Primary reference	Structural basis of the recognition of a methylated histone tail by JMJD2A., Chen Z, Zang J, Kappler J, Hong X, Crawford F, Wang Q, Lan F, Jiang C, Whetstine J, Dai S, Hansen K, Shi Y, Zhang G, Proc Natl Acad Sci U S A. 2007 Jun 26;104(26):10818-23. Epub 2007 Jun 13. PMID:17567753

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (130 Kb) [Save to disk] Biological Unit Coordinates (2p5b.pdb1.gz) 65 Kb Biological Unit Coordinates (2p5b.pdb2.gz) 63 Kb LPC: Ligand-Protein Contacts for 2P5B CSU: Contacts of Structural Units for 2P5B Likely Quarternary Molecular Structure file(s) for 2P5B Structure Factors (593 Kb) Retrieve 2P5B in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2P5B from S2C, [Save to disk] Re-refined 2p5b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2P5B 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 2P5B

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 2P5B, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2p5b_J] [2p5b_B] [2p5b] [2p5b_A] [2p5b_I] SWISS-PROT database: [P84239] [O75164] Domain organization of [H3_URECA] [KDM4A_HUMAN] by SWISSPFAM Domains found in 2P5B: [JmjC] [JmjN ] by SMART

Other resources with information on 2P5B

Community annotation for 2P5B at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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