6YOP | pdb_00006yop

Structure of SAMM50 LIR bound to GABARAP

• PDB DOI: https://doi.org/10.2210/pdb6YOP/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2020-04-14 Released: 2021-04-28 
• Deposition Author(s): Mouilleron, S., Wenxin, Z., Johansen, T., Tooze, S., Abudu, Y.P., Lamark, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free: 
  0.159 (Depositor), 0.166 (DCC) 
• R-Value Work: 
  0.138 (Depositor), 0.147 (DCC) 
• R-Value Observed: 
  0.139 (Depositor) 

Starting Model: experimental

Literature

Structure of SAMM50 LIR bound to GABARAP

Mouilleron, S., Wenxin, Z., Johansen, T., Tooze, S., Abudu, Y.P., Lamark, T.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 15.95 kDa 
• Atom Count: 1,385 
• Modeled Residue Count: 133 
• Deposited Residue Count: 135 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sorting and assembly machinery component 50 homolog,Gamma-aminobutyric acid receptor-associated protein	A	135	Homo sapiens	Mutation(s): 0  Gene Names: SAMM50, SAM50, CGI-51, TRG3, GABARAP, FLC3B, HT004
UniProt & NIH Common Fund Data Resources
Find proteins for O95166 (Homo sapiens) Explore O95166  Go to UniProtKB:  O95166
PHAROS:  O95166 GTEx:  ENSG00000170296
Find proteins for Q9Y512 (Homo sapiens) Explore Q9Y512  Go to UniProtKB:  Q9Y512
PHAROS:  Q9Y512 GTEx:  ENSG00000100347
UniProt Groups	O95166Q9Y512

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free:  0.159 (Depositor), 0.166 (DCC) 
• R-Value Work:  0.138 (Depositor), 0.147 (DCC) 
• R-Value Observed: 0.139 (Depositor) 

Space Group: I 2 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.323	α = 90
b = 101.323	β = 90
c = 101.323	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	refinement
xia2	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2021-04-28 
Deposition Author(s): Mouilleron, S., Wenxin, Z., Johansen, T., Tooze, S., Abudu, Y.P., Lamark, T.

Revision History  

• Version 1.0: 2021-04-28
  Type: Initial release
  
• Version 1.1: 2024-01-24
  Changes: Advisory, Data collection, Database references, Refinement description