1M0E Transferase Dna date Jun 12, 2002
title Zebularine: A Novel Dna Methylation Inhibitor That Forms A Covalent Complex With Dna Methyltransferase
authors L.Zhou, X.Cheng, B.A.Connolly, M.J.Dickman, P.J.Hurd, D.P.Hornby
compound source
Molecule: 5'-D(Pcpcpaptpgpcpgpcptpgpapc)-3'
Chain: C
Engineered: Yes
Synthetic: Yes

Molecule: 5'-D(Pgptpcpapgp(Z)Pgpcpaptpgpg)-3'
Chain: D
Engineered: Yes

Synthetic: Yes

Molecule: Modification Methylase Hhai
Chain: A
Synonym: Cytosine-Specific Methyltransferase Hhai, M.Hhai
Engineered: Yes

Organism_scientific: Haemophilus Haemolyticus
Organism_taxid: 726
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: H 3 2
R_factor 0.177 R_Free 0.243
length a length b length c angle alpha angle beta angle gamma
96.190 96.190 315.750 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.50 Å
ligand SAH, Z enzyme Transferase E.C. BRENDA
related structures by homologous chain: 1HMY, 9MHT
  • DNA (cytosine-5-)-methyltran...

  • Primary referenceZebularine: a novel DNA methylation inhibitor that forms a covalent complex with DNA methyltransferases., Zhou L, Cheng X, Connolly BA, Dickman MJ, Hurd PJ, Hornby DP, J Mol Biol 2002 Aug 23;321(4):591-9. PMID:12206775
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (74 Kb) [Save to disk]
  • Biological Unit Coordinates (1m0e.pdb1.gz) 70 Kb
  • LPC: Ligand-Protein Contacts for 1M0E
  • CSU: Contacts of Structural Units for 1M0E
  • Likely Quarternary Molecular Structure file(s) for 1M0E
  • Retrieve 1M0E in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1M0E from S2C, [Save to disk]
  • View 1M0E in 3D
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  • 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 1M0E
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1M0E, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1m0ea_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1m0e from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1m0e_A] [1m0e_C] [1m0e_D] [1m0e]
  • SWISS-PROT database: [P05102]
  • Domain organization of [MTH1_HAEPH] by SWISSPFAM
  • Other resources with information on 1M0E
  • Community annotation for 1M0E 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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