2XMS Signaling Protein date Jul 29, 2010
title Crystal Structure Of Human Ndrg2 Protein Provides Insight Into Its Role As A Tumor Suppressor
authors J.Hwang, Y.Kim, H.Lee, M.H.Kim
compound source
Molecule: Protein Ndrg2
Chain: A
Fragment: Alpha-Beta Hydrolase Domain, Residues 24-304
Synonym: Ndrg2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 31 2 1
R_factor 0.17267 R_Free 0.20750
crystal
cell
length a length b length c angle alpha angle beta angle gamma
93.098 93.098 90.205 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.15 Å
ligand CL, IMD enzyme
Primary referenceCrystal structure of human NDRG2 protein provides insight into its role as a tumor suppressor., Hwang J, Kim Y, Kang HB, Jaroszewski L, Deacon A, Lee H, Choi WC, Kim KJ, Kim CH, Kang BS, Lee JO, Oh TK, Kim JW, Wilson IA, Kim MH, J Biol Chem. 2011 Jan 18. PMID:21247902
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (52 Kb) [Save to disk]
  • Biological Unit Coordinates (2xms.pdb1.gz) 94 Kb
  • LPC: Ligand-Protein Contacts for 2XMS
  • CSU: Contacts of Structural Units for 2XMS
  • Structure Factors (323 Kb)
  • Retrieve 2XMS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2XMS from S2C, [Save to disk]
  • Re-refined 2xms structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2XMS 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 2XMS
  • 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 2XMS, from MSDmotif at EBI
  • Fold representative 2xms from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2xms_A] [2xms]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 2XMS with the sequences similar proteins can be viewed for 2XMS's classification 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 at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2XMS
  • Community annotation for 2XMS 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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