2XDV	Nuclear Protein	date	May 07, 2010
title	Crystal Structure Of The Catalytic Domain Of Flj14393
authors	T.Krojer, J.R.C.Muniz, S.S.Ng, E.Pilka, K.Guo, A.C.W.Pike, P.Filippakopoulos, S.Knapp, K.L.Kavanagh, O.Gileadi, G.Bunkoczi F.Niesen, F.Sobott, O.Fedorov, P.Savitsky, G.Kochan, M.Daniel, F. Delft, C.H.Arrowsmith, A.M.Edwards, J.Weigelt, C.Bountra, U.Oppe
compound		source
Molecule: Myc-Induced Nuclear Antigen Chain: A Fragment: Catalytic Domain, Residues 26-465 Synonym: Flj14393, Mineral Dust-Induced Gene Protein, Nucle Protein 52; 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_vector_type: Plasmid Expression_system_plasmid: Pnic28-Bsa4
symmetry	Space Group: P 43 3 2	R_factor 0.197 R_Free 0.229
crystal cell	length a length b length c angle alpha angle beta angle gamma 185.180 185.180 185.180 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.57 Å
ligand	CD, EDO, MN, NI, OGA	enzyme
Gene Ontology	Chain Function Process Component A transcription corepressor ac...
Primary reference	Ribosomal oxygenases are structurally conserved from prokaryotes to humans., Chowdhury R, Sekirnik R, Brissett NC, Krojer T, Ho CH, Ng SS, Clifton IJ, Ge W, Kershaw NJ, Fox GC, Muniz JR, Vollmar M, Phillips C, Pilka ES, Kavanagh KL, von Delft F, Oppermann U, McDonough MA, Doherty AJ, Schofield CJ, Nature. 2014 May 11. doi: 10.1038/nature13263. PMID:24814345

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (143 Kb) [Save to disk] Biological Unit Coordinates (2xdv.pdb1.gz) 793 Kb Biological Unit Coordinates (2xdv.pdb2.gz) 267 Kb LPC: Ligand-Protein Contacts for 2XDV CSU: Contacts of Structural Units for 2XDV Structure Factors (534 Kb) Retrieve 2XDV in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2XDV from S2C, [Save to disk] Re-refined 2xdv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2XDV 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 2XDV

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 2XDV, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2xdv] [2xdv_A] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 2XDV: [JmjC ] by SMART

Other resources with information on 2XDV

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

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