1MR1 Signaling Protein date Sep 17, 2002
title Crystal Structure Of A Smad4-Ski Complex
authors J.W.Wu, A.R.Krawitz, J.Chai, W.Li, F.Zhang, K.Luo, Y.Shi
compound source
Molecule: Mothers Against Decapentaplegic Homolog 4
Chain: A, B
Fragment: Mh2 Domain
Synonym: Smad4, Mothers Against Dpp Homolog 4, Deletion Target In Pancreatic Carcinoma 4, Hsmad4;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Ski Oncogene
Chain: C, D
Fragment: Smad4-Binding Domain
Synonym: Ski, C-Ski
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 32 2 1
R_factor 0.231 R_Free 0.280
length a length b length c angle alpha angle beta angle gamma
109.800 109.800 141.100 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.85 Å
ligand ZN enzyme
related structures by homologous chain: 1G88, 1U7V
Primary referenceStructural mechanism of Smad4 recognition by the nuclear oncoprotein Ski: insights on Ski-mediated repression of TGF-beta signaling., Wu JW, Krawitz AR, Chai J, Li W, Zhang F, Luo K, Shi Y, Cell 2002 Nov 1;111(3):357-67. PMID:12419246
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (97 Kb) [Save to disk]
  • Biological Unit Coordinates (1mr1.pdb1.gz) 45 Kb
  • Biological Unit Coordinates (1mr1.pdb2.gz) 50 Kb
  • LPC: Ligand-Protein Contacts for 1MR1
  • CSU: Contacts of Structural Units for 1MR1
  • Likely Quarternary Molecular Structure file(s) for 1MR1
  • Retrieve 1MR1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1MR1 from S2C, [Save to disk]
  • View 1MR1 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 1MR1
  • 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 1MR1, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1mr1a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1mr1b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1mr1c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1mr1d_, region D [Jmol] [rasmolscript] [script source]
  • Fold representative 1mr1 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: [1mr1] [1mr1_D] [1mr1_C] [1mr1_B] [1mr1_A]
  • SWISS-PROT database: [P12755] [Q13485]
  • Domain organization of [SKI_HUMAN] [SMAD4_HUMAN] by SWISSPFAM
  • Domains found in 1MR1: [DWB] [c-SKI_SMAD_bind ] by SMART
  • Alignments of the sequence of 1MR1 with the sequences similar proteins can be viewed for 1MR1's classification [SKI_HUMAN] [SMAD4_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [SKI_HUMAN] [SMAD4_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1MR1
  • Community annotation for 1MR1 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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