5KDI

How FAPP2 Selects Simple Glycosphingolipids Using the GLTP-fold


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.177 
  • R-Value Work: 0.131 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

How FAPP2 Selects Simple Glycosphingolipids Using the GLTP-fold: Structural Insights into Specificity in the GLTP-Family

Ochoa-Lizarralde, B.Popov, A.N.Samygina, V.R.Zhai, X.Mishra, S.Gao, Y.Simanshu, D.K.Patel, D.J.Brown, R.E.Malinina, L.

(2017) J.Biol.Chem. --: --


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Pleckstrin homology domain-containing family A member 8
A, B
211Homo sapiensMutation(s): 2 
Gene Names: PLEKHA8 (FAPP2)
Find proteins for Q96JA3 (Homo sapiens)
Go to Gene View: PLEKHA8
Go to UniProtKB:  Q96JA3
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
6S8
Query on 6S8

Download SDF File 
Download CCD File 
A, B
(~{Z})-~{N}-[(~{E},2~{S},3~{R})-1-[(2~{R},3~{R},4~{S},5~{R},6~{R})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-octadec-4-en-2-yl]octadec-9-enamide
N-(9Z-octadecenoyl)-1-beta-galactosyl-sphing-4-enine
C42 H79 N O8
MVGFIPNJBNBHNC-VTRIZHIOSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.177 
  • R-Value Work: 0.131 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 66.241α = 90.00
b = 74.607β = 90.00
c = 93.592γ = 90.00
Software Package:
Software NamePurpose
MOLREPphasing
XDSdata reduction
SCALAdata scaling
PDB_EXTRACTdata extraction
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesNIGMS GM45928, NCI121493
CICbioGUNESpainCICbioGUNE research funds
RFBRRussian Federation14-04-01671

Revision History 

  • Version 1.0: 2017-12-13
    Type: Initial release