1DSZ Transcription Dna date Jan 10, 2000
title Structure Of The Rxrrar Dna-Binding Domain Heterodimer In Complex With The Retinoic Acid Response Element Dr1
authors F.Rastinejad, T.Wagner, Q.Zhao, S.Khorasanizadeh
compound source
Molecule: Dna (5'- D(Cpapgpgptpcpapapapgpgptpcpapg)-3');
Chain: C
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'- D(Cptpgpapcpcptptptpgpapcpcptpg)-3');
Chain: D
Engineered: Yes

Synthetic: Yes

Molecule: Retinoic Acid Receptor Alpha
Chain: A
Fragment: Residues 82-167
Synonym: Rar-Alpha
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-2t

Molecule: Retinoic Acid Receptor Rxr-Alpha
Chain: B
Fragment: Residues 129-212
Synonym: Rxr-Alpha
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-2t
symmetry Space Group: P 21 21 21
R_factor 0.198 R_Free 0.267
crystal
cell
length a length b length c angle alpha angle beta angle gamma
80.660 33.900 101.860 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand ZN enzyme
related structures by homologous chain: 1A6Y, 2NLL
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceStructure of the RXR-RAR DNA-binding complex on the retinoic acid response element DR1., Rastinejad F, Wagner T, Zhao Q, Khorasanizadeh S, EMBO J 2000 Mar 1;19(5):1045-54. PMID:10698945
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (50 Kb) [Save to disk]
  • Biological Unit Coordinates (1dsz.pdb1.gz) 45 Kb
  • LPC: Ligand-Protein Contacts for 1DSZ
  • CSU: Contacts of Structural Units for 1DSZ
  • Likely Quarternary Molecular Structure file(s) for 1DSZ
  • Retrieve 1DSZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DSZ from S2C, [Save to disk]
  • View 1DSZ 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 1DSZ
  • 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 1DSZ, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1dsza_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1dszb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1dsz 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: [1dsz_B] [1dsz_A] [1dsz] [1dsz_D] [1dsz_C]
  • SWISS-PROT database: [P10276] [P19793]
  • Domain organization of [RARA_HUMAN] [RXRA_HUMAN] by SWISSPFAM
  • Domain found in 1DSZ: [ZnF_C4 ] by SMART
  • Alignments of the sequence of 1DSZ with the sequences similar proteins can be viewed for 1DSZ's classification [RARA_HUMAN] [RXRA_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 [RARA_HUMAN] [RXRA_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1DSZ
  • Community annotation for 1DSZ 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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