1J46 Transcription Dna date Jul 23, 2001
title 3d Solution Nmr Structure Of The Wild Type Hmg-Box Domain Of The Human Male Sex Determining Factor Sry Complexed To Dna
authors G.M.Clore, E.C.Murphy
compound source
Molecule: Sex-Determining Region Y Protein
Chain: A
Fragment: Hmg-Box Domain
Synonym: Sry
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector: Pet21a

Molecule: 5'-D(Cpcptpgpcpapcpapapapcpapcpc)- 3';
Chain: B
Engineered: Yes

Synthetic: Yes

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

Synthetic: Yes
methodSolution NMR
related structures by homologous chain: 1J47, 1O4X
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis for SRY-dependent 46-X,Y sex reversal: modulation of DNA bending by a naturally occurring point mutation., Murphy EC, Zhurkin VB, Louis JM, Cornilescu G, Clore GM, J Mol Biol 2001 Sep 21;312(3):481-99. PMID:11563911
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (47 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 1J46
  • Retrieve 1J46 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1J46 from S2C, [Save to disk]
  • View 1J46 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 1J46
  • 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 1J46, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1j46a_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1j46 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: [1j46_A] [1j46_C] [1j46_B] [1j46]
  • SWISS-PROT database: [Q05066]
  • Domain organization of [SRY_HUMAN] by SWISSPFAM
  • Domain found in 1J46: [HMG ] by SMART
  • Alignments of the sequence of 1J46 with the sequences similar proteins can be viewed for 1J46's classification [SRY_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 [SRY_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1J46
  • Community annotation for 1J46 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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