2P1B Chaperone date Mar 03, 2007
title Crystal Structure Of Human Nucleophosmin-Core
authors H.H.Lee, H.S.Kim, J.Y.Kang, B.I.Lee, J.Y.Ha, H.J.Yoon, S.O.Lim, G.J S.W.Suh
compound source
Molecule: Nucleophosmin
Chain: A, B, C, D, E, F, G, H, I, J
Fragment: N-Terminal Core
Synonym: Npm, Nucleolar Phosphoprotein B23, Numatrin, Nucle Protein No38;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-21a(+)
symmetry Space Group: P 21 21 21
R_factor 0.213 R_Free 0.232
crystal
cell
length a length b length c angle alpha angle beta angle gamma
99.262 107.841 108.694 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.75 Å
Primary referenceCrystal structure of human nucleophosmin-core reveals plasticity of the pentamer-pentamer interface., Lee HH, Kim HS, Kang JY, Lee BI, Ha JY, Yoon HJ, Lim SO, Jung G, Suh SW, Proteins. 2007 Nov 15;69(3):672-8. PMID:17879352
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (163 Kb) [Save to disk]
  • Biological Unit Coordinates (2p1b.pdb1.gz) 156 Kb
  • Biological Unit Coordinates (2p1b.pdb2.gz) 80 Kb
  • Biological Unit Coordinates (2p1b.pdb3.gz) 80 Kb
  • CSU: Contacts of Structural Units for 2P1B
  • Likely Quarternary Molecular Structure file(s) for 2P1B
  • Structure Factors (235 Kb)
  • Retrieve 2P1B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2P1B from S2C, [Save to disk]
  • Re-refined 2p1b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2P1B 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 2P1B
  • 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 2P1B, from MSDmotif at EBI
  • Fold representative 2p1b from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2p1b]
  • SWISS-PROT database: [P06748]
  • Domain organization of [NPM_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 2P1B with the sequences similar proteins can be viewed for 2P1B's classification [NPM_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [NPM_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2P1B
  • Community annotation for 2P1B at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science