3KMP Transcription Regulator Dna date Nov 11, 2009
title Crystal Structure Of Smad1-Mh1dna Complex
authors N.Baburajendran, P.Palasingam, K.Narasimhan, R.Jauch, P.R.Kolatk
compound source
Molecule: Smad1-Mh1
Chain: A, B
Fragment: Unp Residues 9-132
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Smad1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Petg60a

Molecule: 5'-D(Paptpcpapgptpcptpapgpapcpaptp
Chain: C
Engineered: Yes

Synthetic: Yes

Molecule: 5'-D(Pgptpaptpgptpcptpapgpapcptpgp
Chain: D
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.206 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
73.938 77.490 83.780 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand GOL, ZN enzyme
note 3KMP is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructure of Smad1 MH1/DNA complex reveals distinctive rearrangements of BMP and TGF-{beta} effectors., Baburajendran N, Palasingam P, Narasimhan K, Sun W, Prabhakar S, Jauch R, Kolatkar PR, Nucleic Acids Res. 2010 Feb 10. PMID:20147459
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (118 Kb) [Save to disk]
  • Biological Unit Coordinates (3kmp.pdb1.gz) 113 Kb
  • LPC: Ligand-Protein Contacts for 3KMP
  • CSU: Contacts of Structural Units for 3KMP
  • Structure Factors (96 Kb)
  • Retrieve 3KMP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3KMP from S2C, [Save to disk]
  • Re-refined 3kmp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3KMP 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 3KMP
  • 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 3KMP, from MSDmotif at EBI
  • Fold representative 3kmp from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3kmp_C] [3kmp_B] [3kmp] [3kmp_D] [3kmp_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3KMP: [DWA ] by SMART
  • Other resources with information on 3KMP
  • Community annotation for 3KMP 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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