2RB3 Lipid Binding Protein date Sep 18, 2007
title Crystal Structure Of Human Saposin D
authors T.Maier, M.Rossman, W.Saenger
compound source
Molecule: Proactivator Polypeptide
Chain: A, B, C, D
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Psap, Glba, Sap1
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
Expression_system_strain: Gs115
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppic9k
symmetry Space Group: P 1
R_factor 0.211 R_Free 0.274
crystal
cell
length a length b length c angle alpha angle beta angle gamma
40.154 41.088 65.929 89.96 80.84 71.49
method X-Ray Diffractionresolution 2.10 Å
ligand GOL, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceCrystal structures of human saposins C and d: implications for lipid recognition and membrane interactions., Rossmann M, Schultz-Heienbrok R, Behlke J, Remmel N, Alings C, Sandhoff K, Saenger W, Maier T, Structure. 2008 May;16(5):809-17. PMID:18462685
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (63 Kb) [Save to disk]
  • Biological Unit Coordinates (2rb3.pdb1.gz) 30 Kb
  • Biological Unit Coordinates (2rb3.pdb2.gz) 30 Kb
  • LPC: Ligand-Protein Contacts for 2RB3
  • CSU: Contacts of Structural Units for 2RB3
  • Likely Quarternary Molecular Structure file(s) for 2RB3
  • Structure Factors (160 Kb)
  • Retrieve 2RB3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2RB3 from S2C, [Save to disk]
  • Re-refined 2rb3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2RB3 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 2RB3
  • 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
  • 3D motif for 2RB3, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2rb3_B] [2rb3_C] [2rb3_A] [2rb3] [2rb3_D]
  • SWISS-PROT database: [P07602]
  • Belongs to the amoebapore (amoebapore) family according to TCDB.
  • Domain organization of [SAP_HUMAN] by SWISSPFAM
  • Domain found in 2RB3: [SapB ] by SMART
    • Other resources with information on 2RB3
  • Community annotation for 2RB3 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science