2R9A Protein Binding date Sep 12, 2007
title Crystal Structure Of Human Xlf
authors S.N.Andres, M.S.Junop
compound source
Molecule: Non-Homologous End-Joining Factor 1
Chain: A, B
Fragment: N-Terminal Fragment, Unp Residues 1-224
Synonym: Protein Cernunnos, Xrcc4-Like Factor
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nhej1, Xlf
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rossetta(De3)
symmetry Space Group: P 21 21 21
R_factor 0.251 R_Free 0.287
length a length b length c angle alpha angle beta angle gamma
63.460 86.950 91.910 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand MSE enzyme
Primary referenceCrystal Structure of Human XLF: A Twist in Nonhomologous DNA End-Joining., Andres SN, Modesti M, Tsai CJ, Chu G, Junop MS, Mol Cell. 2007 Dec 28;28(6):1093-101. PMID:18158905
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (2r9a.pdb1.gz) 76 Kb
  • LPC: Ligand-Protein Contacts for 2R9A
  • CSU: Contacts of Structural Units for 2R9A
  • Likely Quarternary Molecular Structure file(s) for 2R9A
  • Structure Factors (128 Kb)
  • Retrieve 2R9A in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2R9A from S2C, [Save to disk]
  • Re-refined 2r9a structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2R9A 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 2R9A
  • 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 2R9A, from MSDmotif at EBI
  • Fold representative 2r9a from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2r9a_B] [2r9a] [2r9a_A]
  • SWISS-PROT database: [Q9H9Q4]
  • Domain organization of [NHEJ1_HUMAN] by SWISSPFAM
  • Other resources with information on 2R9A
  • Community annotation for 2R9A 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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