2XML	Oxidoreductase	date	Jul 28, 2010
title	Crystal Structure Of Human Jmjd2c Catalytic Domain
authors	W.W.Yue, C.Gileadi, T.Krojer, A.C.W.Pike, F.Von Delft, S.Ng, L.Car C.Arrowsmith, J.Weigelt, A.Edwards, C.Bountra, U.Oppermann
compound		source
Molecule: Lysine-Specific Demethylase 4c Chain: A, B Fragment: Jumonji Domain, Residues 1-347 Synonym: Jmjc Domain-Containing Histone Demethylation Prote Jmjd2c, Gene Amplified In Squamous Cell Carcinoma 1 Protein Protein; Ec: 1.14.11.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_variant: R3-Prare2 Expression_system_vector: Pnic28-Bsa4
symmetry	Space Group: P 2 21 21	R_factor 0.196 R_Free 0.254
crystal cell	length a length b length c angle alpha angle beta angle gamma 88.660 95.870 100.690 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.55 Å
ligand	CL, EDO, NI, OGA, ZN BindingDB	enzyme	Oxidoreductase E.C.1.14.11 BRENDA
Primary reference	Structural and evolutionary basis for the dual substrate selectivity of human KDM4 histone demethylase family., Hillringhaus L, Yue WW, Rose NR, Ng SS, Gileadi C, Loenarz C, Bello SH, Bray JE, Schofield CJ, Oppermann U, J Biol Chem. 2011 Dec 2;286(48):41616-25. Epub 2011 Sep 13. PMID:21914792

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (234 Kb) [Save to disk] Biological Unit Coordinates (2xml.pdb1.gz) 114 Kb Biological Unit Coordinates (2xml.pdb2.gz) 115 Kb LPC: Ligand-Protein Contacts for 2XML CSU: Contacts of Structural Units for 2XML Structure Factors (1584 Kb) Retrieve 2XML in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2XML from S2C, [Save to disk] Re-refined 2xml structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2XML 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 2XML

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 2XML, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2xml_A] [2xml_B] [2xml] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 2XML: [JmjC] [JmjN ] by SMART

Other resources with information on 2XML

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

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