Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: light scattering

Macromolecule Content

• Total Structure Weight: 24.77 kDa 
• Atom Count: 2154 
• Modelled Residue Count: 206 
• Deposited Residue Count: 209 
• Unique protein chains: 1

3RZN

Crystal Structure of Human Glycolipid Transfer Protein complexed with 3-O-sulfo-galactosylceramide containing nervonoyl acyl chain (24:1)

• PDB DOI: 10.2210/pdb3RZN/pdb

• Classification: LIPID TRANSPORT
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-05-12 Released: 2012-02-08 
• Deposition Author(s): Samygina, V., Cabo-Bilbao, A., Popov, A.N., Ochoa-Lizarralde, B., Patel, D.J., Brown, R.E., Malinina, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free: 0.157 
• R-Value Work: 0.138 
• R-Value Observed: 0.139 

Literature

Enhanced selectivity for sulfatide by engineered human glycolipid transfer protein.

Samygina, V.R., Popov, A.N., Cabo-Bilbao, A., Ochoa-Lizarralde, B., Goni-de-Cerio, F., Zhai, X., Molotkovsky, J.G., Patel, D.J., Brown, R.E., Malinina, L.

(2011) Structure 19: 1644-1654

• PubMed: 22078563 
• DOI: 10.1016/j.str.2011.09.011
• Primary Citation of Related Structures:  
  3RIC, 3RWV, 3RZN, 3S0I, 3S0K


• PubMed Abstract: 
  

Human glycolipid transfer protein (GLTP) fold represents a novel structural motif for lipid binding/transfer and reversible membrane translocation. GLTPs transfer glycosphingolipids (GSLs) that are key regulators of cell growth, division, surface adhesion, and neurodevelopment. Herein, we report structure-guided engineering of the lipid binding features of GLTP. New crystal structures of wild-type GLTP and two mutants (D48V and A47D‖D48V), each containing bound N-nervonoyl-sulfatide, reveal the molecular basis for selective anchoring of sulfatide (3-O-sulfo-galactosylceramide) by D48V-GLTP. Directed point mutations of "portal entrance" residues, A47 and D48, reversibly regulate sphingosine access to the hydrophobic pocket via a mechanism that could involve homodimerization. "Door-opening" conformational changes by phenylalanines within the hydrophobic pocket are revealed during lipid encapsulation by new crystal structures of bona fide apo-GLTP and GLTP complexed with N-oleoyl-glucosylceramide. The development of "engineered GLTPs" with enhanced specificity for select GSLs provides a potential new therapeutic approach for targeting GSL-mediated pathologies.

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Organizational Affiliation: 

Structural Biology Unit, CIC bioGUNE, Technology Park of Bizkaia, 48160 Derio-Bilbao, Spain.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycolipid transfer protein	A	209	Homo sapiens	Mutation(s): 0  Gene Names: GLTP
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NZD2 (Homo sapiens) Explore Q9NZD2  Go to UniProtKB:  Q9NZD2
PHAROS:  Q9NZD2 GTEx:  ENSG00000139433

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CIS	B [auth A]	(15Z)-N-((1S,2R,3E)-2-HYDROXY-1-{[(3-O-SULFO-BETA-D-GALACTOPYRANOSYL)OXY]METHYL}HEPTADEC-3-ENYL)TETRACOS-15-ENAMIDE C48 H91 N O11 S ZZQWQNAZXFNSEP-JCOQVFCVSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free: 0.157 
• R-Value Work: 0.138 
• R-Value Observed: 0.139 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.891	α = 90
b = 50.06	β = 118.52
c = 65.404	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
AMoRE	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-05-12 
• Released Date: 2012-02-08 
Deposition Author(s): Samygina, V., Cabo-Bilbao, A., Popov, A.N., Ochoa-Lizarralde, B., Patel, D.J., Brown, R.E., Malinina, L.

Revision History  

• Version 1.0: 2012-02-08
  Type: Initial release
  
• Version 1.1: 2017-10-25
  Changes: Author supporting evidence