2YT4 Rna Binding Protein date Apr 05, 2007
title Crystal Structure Of Human Dgcr8 Core
authors Y.Cho, S.Y.Sohn
compound source
Molecule: Protein Dgcr8
Chain: A
Fragment: Two Dsrbds And C-Terminal Domain
Synonym: Digeorge Syndrome Critical Region 8, Digeorge Synd Chromosomal Region;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Strain: Hek293t
Gene: Dgcr8, C22orf12, Dgcrk6
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a
symmetry Space Group: C 1 2 1
R_factor 0.214 R_Free 0.269
length a length b length c angle alpha angle beta angle gamma
57.511 59.985 70.921 90.00 106.86 90.00
method X-Ray Diffractionresolution 2.60 Å

Primary referenceCrystal structure of human DGCR8 core., Sohn SY, Bae WJ, Kim JJ, Yeom KH, Kim VN, Cho Y, Nat Struct Mol Biol. 2007 Sep;14(9):847-53. Epub 2007 Aug 19. PMID:17704815
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (37 Kb) [Save to disk]
  • Biological Unit Coordinates (2yt4.pdb1.gz) 33 Kb
  • CSU: Contacts of Structural Units for 2YT4
  • Likely Quarternary Molecular Structure file(s) for 2YT4
  • Structure Factors (48 Kb)
  • Retrieve 2YT4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2YT4 from S2C, [Save to disk]
  • Re-refined 2yt4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2YT4 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 2YT4
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2YT4, from MSDmotif at EBI
  • Fold representative 2yt4 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2yt4_A] [2yt4]
  • SWISS-PROT database: [Q8WYQ5]
  • Domain organization of [DGCR8_HUMAN] by SWISSPFAM
  • Domain found in 2YT4: [DSRM ] by SMART
  • Other resources with information on 2YT4
  • Community annotation for 2YT4 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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