2QYP Lipid Binding Protein date Aug 15, 2007
title Orthorhombic Crystal Structure Of Human Saposin C Dimer In Open Conformation
authors M.Rossmann, W.Saenger, T.Maier
compound source
Molecule: Proactivator Polypeptide
Chain: A, B
Fragment: Saposin-C Domain
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: C 2 2 21
R_factor 0.229 R_Free 0.290
crystal
cell
length a length b length c angle alpha angle beta angle gamma
57.008 88.904 93.465 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.45 Å
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] (30 Kb) [Save to disk]
  • Biological Unit Coordinates (2qyp.pdb1.gz) 26 Kb
  • CSU: Contacts of Structural Units for 2QYP
  • Likely Quarternary Molecular Structure file(s) for 2QYP
  • Structure Factors (139 Kb)
  • Retrieve 2QYP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2QYP from S2C, [Save to disk]
  • Re-refined 2qyp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2QYP 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 2QYP
  • 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 2QYP, from MSDmotif at EBI
  • Fold representative 2qyp from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2qyp_B] [2qyp_A] [2qyp]
  • SWISS-PROT database: [P07602]
  • Belongs to the amoebapore (amoebapore) family according to TCDB.
  • Domain organization of [SAP_HUMAN] by SWISSPFAM
  • Domain found in 2QYP: [SapB ] by SMART
  • Other resources with information on 2QYP
  • Community annotation for 2QYP 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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