3BRD Dna Binding Protein Dna date Dec 21, 2007
title Csl (Lag-1) Bound To Dna With Lin-12 Ram Peptide, P212121
authors J.J.Wilson, R.A.Kovall
compound source
Molecule: Dna (5'- D(Dtpdtpdapdcpdtpdgpdtpdgpdgpdgpdapdapdapdgp
Chain: B
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'- D(Dapdapdtpdcpdtpdtpdtpdcpdcpdcpdapdcpdapdgp
Chain: C
Engineered: Yes

Synthetic: Yes

Molecule: Lin-12 And Glp-1 Phenotype Protein 1, Isoform A
Chain: A
Fragment: Core Domain
Synonym: Dna-Binding Protein Lag-1, Lag-1 Protein
Engineered: Yes

Organism_scientific: Caenorhabditis Elegans
Organism_taxid: 6239
Gene: Lag-1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta2(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex6p-1

Molecule: Protein Lin-12
Chain: D
Fragment: Ram Peptide
Synonym: Abnormal Cell Lineage Protein 12
Engineered: Yes

Organism_scientific: Caenorhabditis Elegans
Organism_taxid: 6239
Gene: Lin-12
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta2(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28
symmetry Space Group: P 21 21 21
R_factor 0.208 R_Free 0.257
crystal
cell
length a length b length c angle alpha angle beta angle gamma
60.153 98.866 126.313 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.21 Å
ligand EDO enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceRAM induced allostery facilitates assembly of a notch pathway active transcription complex., Friedmann DR, Wilson JJ, Kovall RA, J Biol Chem. 2008 Apr 1;. PMID:18381292
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (93 Kb) [Save to disk]
  • Biological Unit Coordinates (3brd.pdb1.gz) 88 Kb
  • LPC: Ligand-Protein Contacts for 3BRD
  • CSU: Contacts of Structural Units for 3BRD
  • Likely Quarternary Molecular Structure file(s) for 3BRD
  • Structure Factors (554 Kb)
  • Retrieve 3BRD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BRD from S2C, [Save to disk]
  • Re-refined 3brd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3BRD 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 3BRD
  • 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 3BRD, from MSDmotif at EBI
  • Fold representative 3brd from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3brd] [3brd_C] [3brd_B] [3brd_A] [3brd_D]
  • SWISS-PROT database: [P14585] [Q9TYY1]
  • Domain organization of [LIN12_CAEEL] [Q9TYY1_CAEEL] by SWISSPFAM
  • Domains found in 3BRD: [BTD] [LAG1_DNAbind ] by SMART
  • Other resources with information on 3BRD
  • Community annotation for 3BRD 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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