1MDM Transcription Dna date Aug 07, 2002
title Inhibited Fragment Of Ets-1 And Paired Domain Of Pax5 Bound To Dna
authors C.W.Garvie, M.A.Pufall, B.J.Graves, C.Wolberger
compound source
Molecule: Pax5ets Binding Site On The Mb-1 Promoter
Chain: C
Engineered: Yes
Synthetic: Yes
Other_details: Synthesised By The Phosphoramidite Method

Molecule: Pax5ets Binding Site On The Mb-1 Promoter
Chain: D
Engineered: Yes

Synthetic: Yes
Other_details: Synthesised By The Phosphoramidite Method

Molecule: Paired Box Protein Pax-5
Chain: A
Fragment: Paired Dna-Binding Domain, Residues 1-149
Synonym: B-Cell Specific Transcription Factor, Bsap
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pax5
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11a

Molecule: C-Ets-1 Protein
Chain: B
Fragment: Inhibited Ets Dna-Binding Domain, Residues 280- 440;
Synonym: P54
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Gene: Ets-1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11a
symmetry Space Group: P 21 21 2
R_factor 0.259 R_Free 0.310
crystal
cell
length a length b length c angle alpha angle beta angle gamma
77.270 171.230 44.710 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
related structures by homologous chain: 1K7A, 1PDN, 1R36
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceStructural analysis of the autoinhibition of Ets-1 and its role in protein partnerships., Garvie CW, Pufall MA, Graves BJ, Wolberger C, J Biol Chem 2002 Nov 22;277(47):45529-36. Epub 2002 Sep 6. PMID:12221090
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (62 Kb) [Save to disk]
  • Biological Unit Coordinates (1mdm.pdb1.gz) 57 Kb
  • CSU: Contacts of Structural Units for 1MDM
  • Likely Quarternary Molecular Structure file(s) for 1MDM
  • Structure Factors (148 Kb)
  • Retrieve 1MDM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1MDM from S2C, [Save to disk]
  • Re-refined 1mdm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1MDM 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 1MDM
  • 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 1MDM, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1mdma1, region A:19-81 [Jmol] [rasmolscript] [script source]
        - Domain d1mdma2, region A:82-142 [Jmol] [rasmolscript] [script source]
        - Domain d1mdmb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1mdm 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: [1mdm] [1mdm_B] [1mdm_D] [1mdm_C] [1mdm_A]
  • SWISS-PROT database: [P27577] [Q02548]
  • Domain organization of [ETS1_MOUSE] [PAX5_HUMAN] by SWISSPFAM
  • Domains found in 1MDM: [ETS] [PAX ] by SMART
  • Other resources with information on 1MDM
  • Community annotation for 1MDM 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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