1T39 Transferase Dna date Apr 25, 2004
title Human O6-Alkylguanine-Dna Alkyltransferase Covalently Crosslinked To Dna
authors D.S.Daniels, T.T.Woo, K.X.Luu, D.M.Noll, N.D.Clarke, A.E.Pegg, J.A.Tainer
compound source
Molecule: 5'-D(Gpcpcpaptpgp(E1x)Pcptpapgptpa)- 3';
Chain: C, E
Engineered: Yes
Synthetic: Yes

Molecule: 5'-D(Tpapcptpapgpcpcpaptpgpgpc)-3'
Chain: D, F
Engineered: Yes

Synthetic: Yes

Molecule: Methylated-Dna--Protein-Cysteine Methyltransferase;
Chain: A, B
Synonym: 6-O- Methylguanine-Dna Methyltransferase
Ec: 2.1.1.63
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mgmt
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm109
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pqe30
symmetry Space Group: C 1 2 1
R_factor 0.296 R_Free 0.344
crystal
cell
length a length b length c angle alpha angle beta angle gamma
228.145 41.250 70.629 90.00 103.14 90.00
method X-Ray Diffractionresolution 3.30 Å
ligand E1X enzyme Transferase E.C.2.1.1.63 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceDNA binding and nucleotide flipping by the human DNA repair protein AGT., Daniels DS, Woo TT, Luu KX, Noll DM, Clarke ND, Pegg AE, Tainer JA, Nat Struct Mol Biol 2004 Aug;11(8):714-20. Epub 2004 Jun 27. PMID:15221026
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (68 Kb) [Save to disk]
  • Biological Unit Coordinates (1t39.pdb1.gz) 33 Kb
  • Biological Unit Coordinates (1t39.pdb2.gz) 32 Kb
  • LPC: Ligand-Protein Contacts for 1T39
  • CSU: Contacts of Structural Units for 1T39
  • Likely Quarternary Molecular Structure file(s) for 1T39
  • Structure Factors (91 Kb)
  • Retrieve 1T39 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1T39 from S2C, [Save to disk]
  • Re-refined 1t39 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1T39 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 1T39
  • 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 1T39, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1t39a2, region A:6-91 [Jmol] [rasmolscript] [script source]
        - Domain d1t39a1, region A:92-175 [Jmol] [rasmolscript] [script source]
        - Domain d1t39b2, region B:7-91 [Jmol] [rasmolscript] [script source]
        - Domain d1t39b1, region B:92-174 [Jmol] [rasmolscript] [script source]
  • Fold representative 1t39 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: [1t39_E] [1t39_A] [1t39_F] [1t39_C] [1t39_D] [1t39_B] [1t39]
  • SWISS-PROT database: [P16455]
  • Domain organization of [MGMT_HUMAN] by SWISSPFAM
  • Other resources with information on 1T39
  • Community annotation for 1T39 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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