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- SASDC47: Saposin nanoparticle (SapNP) SapA:POPG (SEC-SAXS) (saposin-a, sap... -

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ID or keywords:

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Basic information

Entry
Database: SASBDB / ID: SASDC47
SampleSaposin nanoparticle (SapNP) SapA:POPG (SEC-SAXS)
  • saposin-a (protein), sapA, Homo sapiens
  • 1-palmitoyl-2-oleoyl-sn-glycero-3-phospho-(1'-rac-glycerol) (other), POPG, synthetic compound
Function / homology
Function and homology information


positive regulation of beta-galactosidase activity / ganglioside GM1 transport to membrane / ganglioside GM2 binding / ganglioside GM3 binding / ganglioside GP1c binding / ganglioside GM1 binding / ganglioside GT1b binding / sphingolipid metabolic process / epithelial cell differentiation involved in prostate gland development / Glycosphingolipid catabolism ...positive regulation of beta-galactosidase activity / ganglioside GM1 transport to membrane / ganglioside GM2 binding / ganglioside GM3 binding / ganglioside GP1c binding / ganglioside GM1 binding / ganglioside GT1b binding / sphingolipid metabolic process / epithelial cell differentiation involved in prostate gland development / Glycosphingolipid catabolism / prostate gland growth / lysosomal transport / azurophil granule membrane / regulation of lipid metabolic process / lysosomal lumen / Peptide ligand-binding receptors / enzyme activator activity / adenylate cyclase-inhibiting G protein-coupled receptor signaling pathway / phospholipid binding / late endosome / Platelet degranulation / : / protease binding / scaffold protein binding / G alpha (i) signalling events / lysosome / regulation of autophagy / lysosomal membrane / intracellular membrane-bounded organelle / Neutrophil degranulation / protein homodimerization activity / extracellular space / extracellular exosome / extracellular region / identical protein binding / plasma membrane
Similarity search - Function
Saposin, chordata / Saposin A-type domain / Saposin / : / Saposin A-type domain / Saposin A-type domain profile. / Saposin/surfactant protein-B A-type DOMAIN / Saposin-like type B, region 1 / Saposin-like type B, region 1 / Saposin B type, region 2 ...Saposin, chordata / Saposin A-type domain / Saposin / : / Saposin A-type domain / Saposin A-type domain profile. / Saposin/surfactant protein-B A-type DOMAIN / Saposin-like type B, region 1 / Saposin-like type B, region 1 / Saposin B type, region 2 / Saposin-like type B, region 2 / Saposin (B) Domains / Saposin B type domain / Saposin-like / Saposin B type domain profile.
Similarity search - Domain/homology
Biological speciesHomo sapiens (human)
synthetic compound (others)
CitationDate: 2018 Feb
Title: Saposin Lipid Nanoparticles: A Highly Versatile and Modular Tool for Membrane Protein Research
Authors: Flayhan A / Mertens H / Ural-Blimke Y / Martinez Molledo M / Svergun D
Contact author
  • Haydyn Mertens (EMBL-Hamburg, European Molecular Biology Laboratory (EMBL) - Hamburg outstation, Notkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Models

Model #1502
Type: dummy / Software: (2.9.0) / Radius of dummy atoms: 2.20 A / Symmetry: P1 / Chi-square value: 1.290
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: Saposin nanoparticle (SapNP) SapA:POPG (SEC-SAXS) / Specimen concentration: 7.1 mg/ml / Concentration method: A280 / Entity id: 779 / 780
BufferName: PBS / PK: 7 / pH: 7.4
Entity #779Name: sapA / Type: protein / Description: saposin-a / Formula weight: 9.084 / Num. of mol.: 1 / Source: Homo sapiens / References: UniProt: P07602
Sequence:
SMSLPCDICK DVVTAAGDML KDNATEEEIL VYLEKTCDWL PKPNMSASCK EIVDSYLPVI LDIIKGEMSR PGEVCSALNL CES
Entity #780Name: POPG / Type: other
Description: 1-palmitoyl-2-oleoyl-sn-glycero-3-phospho-(1'-rac-glycerol)
Formula weight: 0.77 / Source: synthetic compound

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Experimental information

BeamInstrument name: PETRA III P12 / City: Hamburg / 国: Germany / Type of source: X-ray synchrotron / Wavelength: 0.124 Å / Dist. spec. to detc.: 3.1 mm
DetectorName: Pilatus 2M
Scan
Title: sapApopg / Measurement date: Dec 15, 2016 / Storage temperature: 10 °C / Cell temperature: 10 °C / Exposure time: 1 sec. / Number of frames: 3600 / Unit: 1/nm /
MinMax
Q0.088 5.0075
Distance distribution function P(R)
Sofotware P(R): GNOM 5.0 / Number of points: 968 /
MinMax
Q0.10716 2.75738
P(R) point1 968
R0 10.5
Result
Type of curve: single_conc
ExperimentalExperimental errorPorodPorod error
MW42 kDa4 43 kDa4
Volume--69 nm37

P(R)P(R) errorGuinierGuinier error
Forward scattering, I0823 4 818 3
Radius of gyration, Rg4 nm0.1 4.1 nm0.1

MinMaxError
D-10.5 0.5
Guinier point32 110 -

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