1JK2 Transcription Dna date Jul 11, 2001
title Zif268 D20a Mutant Bound To The Gct Dna Site
authors J.C.Miller, C.O.Pabo
compound source
Molecule: 5'-D(Apgpcpgptpgpgpgpcptpg)-3'
Chain: B
Engineered: Yes
Synthetic: Yes

Molecule: 5'-D(Tpcpapgpcpcpcpapcpgpc)-3'
Chain: C
Engineered: Yes

Synthetic: Yes

Molecule: Zif268
Chain: A
Fragment: Zinc Fingers (Residues 333-421)
Synonym: Early Growth Response Protein 1
Engineered: Yes
Mutation: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pzifd20a
symmetry Space Group: C 2 2 21
R_factor 0.230 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
43.600 56.050 131.560 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.65 Å
ligand ZN enzyme
related structures by homologous chain: 1A1H, 1A1K
Primary referenceRearrangement of side-chains in a Zif268 mutant highlights the complexities of zinc finger-DNA recognition., Miller JC, Pabo CO, J Mol Biol 2001 Oct 19;313(2):309-15. PMID:11800559
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (33 Kb) [Save to disk]
  • Biological Unit Coordinates (1jk2.pdb1.gz) 29 Kb
  • LPC: Ligand-Protein Contacts for 1JK2
  • CSU: Contacts of Structural Units for 1JK2
  • Likely Quarternary Molecular Structure file(s) for 1JK2
  • Retrieve 1JK2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1JK2 from S2C, [Save to disk]
  • View 1JK2 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 1JK2
  • 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 1JK2, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1jk2a1, region A:103-131 [Jmol] [rasmolscript] [script source]
        - Domain d1jk2a2, region A:132-159 [Jmol] [rasmolscript] [script source]
        - Domain d1jk2a3, region A:160-187 [Jmol] [rasmolscript] [script source]
  • Fold representative 1jk2 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: [1jk2] [1jk2_C] [1jk2_A] [1jk2_B]
  • SWISS-PROT database: [P08046]
  • Domain organization of [EGR1_MOUSE] by SWISSPFAM
  • Domain found in 1JK2: [ZnF_C2H2 ] by SMART
  • Other resources with information on 1JK2
  • Community annotation for 1JK2 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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