1H5P Nuclear Protein date May 24, 2001
title Solution Structure Of The Human Sp100b Sand Domain By Hetero Nmr.
authors M.J.Bottomley, Z.Liu, M.W.Collard, J.I.Huggenvik, T.J.Gibson, M.S
compound source
Molecule: Nuclear Autoantigen Sp100-B
Chain: A
Fragment: Residues 595-688
Synonym: Sand Domain, Kdwk Domain, Speckled 100 Kda, Nuclea Associated Sp100 Protein, Lysp100b;
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_plasmid: Modified Pet-24d
Expression_system_gene: Expressed As Fusion Protein With N- 6-Histidine Tag And A Tev Protease Cleavage Site
methodSolution NMR
note 1H5P is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe SAND domain structure defines a novel DNA-binding fold in transcriptional regulation., Bottomley MJ, Collard MW, Huggenvik JI, Liu Z, Gibson TJ, Sattler M, Nat Struct Biol 2001 Jul;8(7):626-33. PMID:11427895
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (298 Kb) [Save to disk]
  • Biological Unit Coordinates (1h5p.pdb1.gz) 31 Kb
  • CSU: Contacts of Structural Units for 1H5P
  • Original NMR restraints for 1H5P from PDB
  • Experimental data, such as chemical shifts, at BioMagResBank (BMRB)
  • NMR Restraints Grid from BioMagResBank (BMRB)
  • Retrieve 1H5P in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1H5P from S2C, [Save to disk]
    • View 1H5P 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 1H5P
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1H5P, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1h5pa_, region A [Jmol] [rasmolscript] [script source]
  • 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: [1h5p] [1h5p_A]
  • SWISS-PROT database: [P23497]
  • Domain organization of [SP100_HUMAN] by SWISSPFAM
  • Domain found in 1H5P: [SAND ] by SMART
    • Other resources with information on 1H5P
  • Community annotation for 1H5P at PDBWiki (http://pdbwiki.org)
  • NMR Ensemble (OLDERADO: core, domain and representative structure database)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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