1K6O Transcription Dna date Oct 16, 2001
title Crystal Structure Of A Ternary Sap-1srfc-Fos Sre Dna Compl
authors Y.Mo, W.Ho, K.Johnston, R.Marmorstein
compound source
Molecule: 5'-D(Cpapcpapgpgpaptpgptpcpcpaptpa Gpgpapcpa)-3';
Chain: D
Engineered: Yes
Other_details: C-Fos Sre Sequence Strand 1
Synthetic: Yes

Molecule: 5'-D(Tpgptpcpcptpapaptpaptpgpgpapc Cptpgptpg)-3';
Chain: E
Engineered: Yes
Other_details: C-Fos Sre Sequence Strand 2

Synthetic: Yes

Molecule: Ets-Domain Protein Elk-4
Chain: A
Fragment: 1-93
Synonym: Serum Response Factor Accessory Protein 1, Sap-1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Sap
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Lyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Prseta

Molecule: Serum Response Factor
Chain: B, C
Fragment: 133-235
Synonym: Srf
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Srf
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Lyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Presta
symmetry Space Group: P 63
R_factor 0.220 R_Free 0.276
crystal
cell
length a length b length c angle alpha angle beta angle gamma
161.784 161.784 41.224 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.19 Å
Primary referenceCrystal structure of a ternary SAP-1/SRF/c-fos SRE DNA complex., Mo Y, Ho W, Johnston K, Marmorstein R, J Mol Biol 2001 Nov 30;314(3):495-506. PMID:11846562
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (59 Kb) [Save to disk]
  • Biological Unit Coordinates (1k6o.pdb1.gz) 55 Kb
  • CSU: Contacts of Structural Units for 1K6O
  • Likely Quarternary Molecular Structure file(s) for 1K6O
  • Retrieve 1K6O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1K6O from S2C, [Save to disk]
  • View 1K6O 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 1K6O
  • 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 1K6O, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1k6oa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1k6ob_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1k6oc_, region C [Jmol] [rasmolscript] [script source]
  • Fold representative 1k6o 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: [1k6o_A] [1k6o] [1k6o_E] [1k6o_B] [1k6o_C] [1k6o_D]
  • SWISS-PROT database: [P28324] [P11831]
  • Domain organization of [ELK4_HUMAN] [SRF_HUMAN] by SWISSPFAM
  • Domains found in 1K6O: [ETS] [MADS ] by SMART
  • Other resources with information on 1K6O
  • Community annotation for 1K6O 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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