3HM5 Transcription date May 28, 2009
title Sant Domain Of Human Dna Methyltransferase 1 Associated Prot
authors L.Dombrovski, W.Tempel, M.F.Amaya, Y.Tong, S.Ni, C.Bountra, J.Weig C.H.Arrowsmith, A.M.Edwards, A.Bochkarev, J.Min, H.Park, H.Wu, St Genomics Consortium (Sgc)
compound source
Molecule: Dna Methyltransferase 1-Associated Protein 1
Chain: A
Fragment: Sant Domain, Unp Residues 121-212
Synonym: Dnmt1-Associated Protein 1, Dnmap1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dmap1, Kiaa1425
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)-V2r
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28-Mhl
symmetry Space Group: P 61 2 2
R_factor 0.223 R_Free 0.275
length a length b length c angle alpha angle beta angle gamma
36.523 36.523 230.506 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.80 Å
ligand CA, UNX enzyme

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (19 Kb) [Save to disk]
  • Biological Unit Coordinates (3hm5.pdb1.gz) 14 Kb
  • LPC: Ligand-Protein Contacts for 3HM5
  • CSU: Contacts of Structural Units for 3HM5
  • Likely Quarternary Molecular Structure file(s) for 3HM5
  • Structure Factors (646 Kb)
  • Retrieve 3HM5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3HM5 from S2C, [Save to disk]
  • Re-refined 3hm5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3HM5 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 3HM5
  • 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 3HM5, from MSDmotif at EBI
  • Fold representative 3hm5 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3hm5] [3hm5_A]
  • SWISS-PROT database: [Q9NPF5]
  • Domain organization of [DMAP1_HUMAN] by SWISSPFAM
  • Domain found in 3HM5: [SANT ] by SMART
  • Other resources with information on 3HM5
  • Community annotation for 3HM5 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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