6NM4 Gene Regulation Inhibitor date Jan 10, 2019
title Crystal Structure Of Sam-Bound Prdm9 In Complex With Mrk-740
authors D.Ivanochko, L.Halabelian, C.Fischer, J.M.Sanders, S.D.Kattar, P. A.M.Edwards, C.Bountra, C.H.Arrowsmith, Structural Genomics Co (Sgc)
compound source
Molecule: Histone-Lysine N-Methyltransferase Prdm9
Chain: A, B
Fragment: Pr-Set Domain (Unp Residues 195-385)
Synonym: Pr Domain Zinc Finger Protein 9, Pr Domain-Contain Protein 9;
Ec: 2.1.1.43
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Prdm9, Pfm6
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.207 R_Free 0.258
crystal
cell
length a length b length c angle alpha angle beta angle gamma
38.026 74.800 141.435 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.58 Å
ligand KS7, SAM, UNX, ZN enzyme Transferase E.C.2.1.1.43 BRENDA
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (134 Kb) [Save to disk]
  • Biological Unit Coordinates (6nm4.pdb1.gz) 66 Kb
  • Biological Unit Coordinates (6nm4.pdb2.gz) 65 Kb
  • LPC: Ligand-Protein Contacts for 6NM4
  • CSU: Contacts of Structural Units for 6NM4
  • Structure Factors (492 Kb)
  • Retrieve 6NM4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6NM4 from S2C, [Save to disk]
  • View 6NM4 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 6NM4
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6nm4_B] [6nm4_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6NM4
  • Community annotation for 6NM4 at PDBWiki (http://pdbwiki.org)

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