2DOB Lipid Binding Protein date Apr 28, 2006
title Crystal Structure Of Human Saposin A
authors G.G.Prive, V.E.Ahn
compound source
Molecule: Proactivator Polypeptide
Chain: A
Fragment: Saposin A, Residues 60-140
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Psap
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3) Codon Plus
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-16
symmetry Space Group: P 21 21 2
R_factor 0.218 R_Free 0.267
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.680 50.040 33.820 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand CA, MSE enzyme
subcellular loc. Membrane localization by OPM: Lysosome membrane
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structures of saposins A and C., Ahn VE, Leyko P, Alattia JR, Chen L, Prive GG, Protein Sci. 2006 Jul 5;. PMID:16823039
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (19 Kb) [Save to disk]
  • Biological Unit Coordinates (2dob.pdb1.gz) 15 Kb
  • Biological Unit Coordinates (2dob.pdb2.gz) 28 Kb
  • LPC: Ligand-Protein Contacts for 2DOB
  • CSU: Contacts of Structural Units for 2DOB
  • Likely Quarternary Molecular Structure file(s) for 2DOB
  • Structure Factors (45 Kb)
  • Retrieve 2DOB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2DOB from S2C, [Save to disk]
  • Re-refined 2dob structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2DOB 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 2DOB
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2DOB, from MSDmotif at EBI
  • Fold representative 2dob from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2dob] [2dob_A]
  • SWISS-PROT database: [P07602]
  • Belongs to the amoebapore (amoebapore) family according to TCDB.
  • Domain organization of [SAP_HUMAN] by SWISSPFAM
  • Domain found in 2DOB: [SapB ] by SMART
  • Other resources with information on 2DOB
  • Community annotation for 2DOB 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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