1K78 Transcription Dna date Oct 18, 2001
title Pax5(1-149)+Ets-1(331-440)+Dna
authors C.W.Garvie, J.Hagman, C.Wolberger
compound source
Molecule: Pax5ets Binding Site On The Mb-1 Promoter
Chain: C, G
Engineered: Yes
Synthetic: Yes

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

Synthetic: Yes

Molecule: Paired Box Protein Pax5
Chain: A, E, I
Fragment: Paired Domain
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, F
Fragment: Ets Domain
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 21
R_factor 0.227 R_Free 0.260
crystal
cell
length a length b length c angle alpha angle beta angle gamma
77.840 89.750 170.740 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.25 Å
note 1K78 is a representative structure
related structures by homologous chain: 1AWC, 1K79, 6PAX
Gene
Ontology
ChainFunctionProcessComponent
A, I, E


F, B


Primary referenceStructural studies of Ets-1/Pax5 complex formation on DNA., Garvie CW, Hagman J, Wolberger C, Mol Cell 2001 Dec;8(6):1267-76. PMID:11779502
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (145 Kb) [Save to disk]
  • Biological Unit Coordinates (1k78.pdb1.gz) 76 Kb
  • Biological Unit Coordinates (1k78.pdb2.gz) 65 Kb
  • CSU: Contacts of Structural Units for 1K78
  • Likely Quarternary Molecular Structure file(s) for 1K78
  • Structure Factors (646 Kb)
  • Retrieve 1K78 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1K78 from S2C, [Save to disk]
  • Re-refined 1k78 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1K78 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 1K78
  • 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 1K78, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1k78a1, region A:19-81 [Jmol] [rasmolscript] [script source]
        - Domain d1k78a2, region A:82-142 [Jmol] [rasmolscript] [script source]
        - Domain d1k78b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1k78e1, region E:19-81 [Jmol] [rasmolscript] [script source]
        - Domain d1k78e2, region E:82-142 [Jmol] [rasmolscript] [script source]
        - Domain d1k78f_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1k78i1, region I:84-141 [Jmol] [rasmolscript] [script source]
  • Fold representative 1k78 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: [1k78_D] [1k78_G] [1k78] [1k78_H] [1k78_B] [1k78_A] [1k78_E] [1k78_F] [1k78_I] [1k78_C]
  • SWISS-PROT database: [P27577] [Q02548]
  • Domain organization of [ETS1_MOUSE] [PAX5_HUMAN] by SWISSPFAM
  • Domains found in 1K78: [ETS] [PAX ] by SMART
  • Other resources with information on 1K78
  • Community annotation for 1K78 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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