3T30 Chaperone date Jul 23, 2011
title Human Nucleoplasmin (Npm2): A Histone Chaperone In Oocytes A Embryos
authors O.Platonova, J.F.Head, C.W.Akey
compound source
Molecule: Nucleoplasmin-2
Chain: B, E, D, A, C, H, I, J, F, G
Fragment: Npm2 Oligomerisation Domain (Unp Residues 14-122)
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Npm2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Pet23
symmetry Space Group: P 1 21 1
R_factor 0.193 R_Free 0.243
length a length b length c angle alpha angle beta angle gamma
49.030 107.240 108.700 90.00 102.54 90.00
method X-Ray Diffractionresolution 1.90 Å
Primary referenceCrystal Structure and Function of Human Nucleoplasmin (Npm2): A Histone Chaperone in Oocytes and Embryos., Platonova O, Akey IV, Head JF, Akey CW, Biochemistry. 2011 Sep 20;50(37):8078-8089. Epub 2011 Aug 24. PMID:21863821
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (165 Kb) [Save to disk]
  • Biological Unit Coordinates (3t30.pdb1.gz) 81 Kb
  • Biological Unit Coordinates (3t30.pdb2.gz) 81 Kb
  • CSU: Contacts of Structural Units for 3T30
  • Structure Factors (553 Kb)
  • Retrieve 3T30 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3T30 from S2C, [Save to disk]
  • Re-refined 3t30 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3T30 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 3T30
  • 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 3T30, from MSDmotif at EBI
  • Fold representative 3t30 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3t30_F] [3t30_J] [3t30_G] [3t30_C] [3t30_A] [3t30_E] [3t30_I] [3t30_B] [3t30_D] [3t30_H] [3t30]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3T30
  • Community annotation for 3T30 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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