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Structure of the human GABARAPL2 protein in complex with the UBA5 LIR motif
Authors
Huber, J., Loehr, F., Gruber, J., Akutsu, M., Guentert, P., Doetsch, V., Rogov, V.V.
Assembly
Gamma-aminobutyric acid receptor-associated protein-like 2, Ubiquitin-like modifier-activating enzyme 5 (UBA5) LIR motif
Entity
1. Gamma-aminobutyric acid receptor-associated protein-like 2, Ubiquitin-like modifier-activating enzyme 5 (UBA5) LIR motif, entity 1 (polymer, Thiol state: all free), 116 monomers, 13448.37 Da Detail

MGWMFKEDHS LEHRCVESAK IRAKYPDRVP VIVEKVSGSQ IVDIDKRKYL VPSDITVAQF MWIIRKRIQL PSEKAIFLFV DKTVPQSSLT MGQLYEKEKD EDGFLYVAYS GENTFG


2. Gamma-aminobutyric acid receptor-associated protein-like 2, Ubiquitin-like modifier-activating enzyme 5 (UBA5) LIR motif, entity 2 (polymer, Thiol state: not present), 19 monomers, 2171.339 Da Detail

GAMEIIHEDN EWGIELVSE


Total weight
15619.709 Da
Max. entity weight
13448.37 Da
Source organism
Homo sapiens
Exptl. method
solution NMR
Refine. method
torsion angle dynamics
Data set
assigned_chemical_shifts
Chem. Shift Complete
Sequence coverage: 100.0 %, Completeness: 96.7 %, Completeness (bb): 97.8 % Detail

Polymer type: polypeptide(L)

Total1H13C15N
All96.7 % (1576 of 1630)97.9 % (832 of 850)95.0 % (608 of 640)97.1 % (136 of 140)
Backbone97.8 % (782 of 800)96.7 % (264 of 273)98.7 % (392 of 397)96.9 % (126 of 130)
Sidechain96.1 % (920 of 957)98.4 % (568 of 577)92.4 % (342 of 370)100.0 % (10 of 10)
Aromatic85.1 % (126 of 148)100.0 % (74 of 74)69.0 % (49 of 71)100.0 % (3 of 3)
Methyl93.2 % (138 of 148)91.9 % (68 of 74)94.6 % (70 of 74)

1. entity 1

MGWMFKEDHS LEHRCVESAK IRAKYPDRVP VIVEKVSGSQ IVDIDKRKYL VPSDITVAQF MWIIRKRIQL PSEKAIFLFV DKTVPQSSLT MGQLYEKEKD EDGFLYVAYS GENTFG

2. entity 2

GAMEIIHEDN EWGIELVSE

Sample #1

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 (±0.2) K, pH 7.0 (±0.1), Details 0.6 mM [U-99% 13C; U-99% 15N] GABARAPL2, 1.0 mM No Ubiquitin-like modifier-activating enzyme 5 (UBA5) LIR motif, 50 mM No sodium phosphate, 100 mM No sodium chloride, 4.6 mM No sodium azide, 95% H2O/5% D2O


#NameIsotope labelingTypeConcentration
1GABARAPL2[U-99% 13C; U-99% 15N]0.6 (±0.05) mM
2Ubiquitin-like modifier-activating enzyme 5 (UBA5) LIR motifnatural abundance1.0 (±0.05) mM
3sodium phosphatenatural abundance50 (±1.0) mM
4sodium chloridenatural abundance100 (±1.0) mM
5sodium azidenatural abundance4.6 (±0.1) mM
Sample #2

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 298 (±0.2) K, pH 7.0 (±0.1), Details 1.0 mM No GABARAPL2, 0.6 mM [U-99% 13C; U-99% 15N] Ubiquitin-like modifier-activating enzyme 5 (UBA5) LIR motif, 50 mM No sodium phosphate, 100 mM No sodium chloride, 4.6 mM No sodium azide, 95% H2O/5% D2O


#NameIsotope labelingTypeConcentration
6GABARAPL2natural abundance1.0 (±0.05) mM
7Ubiquitin-like modifier-activating enzyme 5 (UBA5) LIR motif[U-99% 13C; U-99% 15N]0.6 (±0.05) mM
8sodium phosphatenatural abundance50 (±1.0) mM
9sodium chloridenatural abundance100 (±1.0) mM
10sodium azidenatural abundance4.6 (±0.1) mM

Protein Blocks Logo
Calculated from 20 models in PDB: 6H8C, Strand ID: A, B Detail


Release date
2018-08-23
Citation
An atypical LIR motif within UBA5 (ubiquitin like modifier activating enzyme 5) interacts with GABARAP proteins and mediates membrane localization of UBA5
Huber, J., Obata, M., Gruber, J., Akutsu, M., Lohr, F., Rogova, N., Guntert, P., Dikic, I., Kirkin, V., Komatsu, M., Dotsch, V., Rogov, V.V.
Autophagy (2019), 1-15, PubMed 30990354 , DOI 10.1080/15548627.2019.1606637 ,
Related entities 1. Gamma-aminobutyric acid receptor-associated protein-like 2, Ubiquitin-like modifier-activating enzyme 5 (UBA5) LIR motif, entity 1, : 3 : 77 entities Detail
Related entities 2. Gamma-aminobutyric acid receptor-associated protein-like 2, Ubiquitin-like modifier-activating enzyme 5 (UBA5) LIR motif, entity 2, : 1 : 1 : 13 entities Detail
Experiments performed 18 experiments Detail
NMR combined restraints 5 contents Detail
Keywords GABARAPL2, SIGNALING PROTEIN, UBA5 LIR motif, protein complex