← Back to search
9vuy

NMR Structure of LC3B in complex with HBx BH3-like motif

Method: SOLUTION NMR Dmax: 50.1 Å Quality: GOOD
▼

1. Protein Identity and Related Structures Protein Identity & Related Structures

Microtubule-associated protein 1 light chain 3 beta

Homo sapiens

UniProt Q9GZQ8

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric（2） Consistent with protein copy count Chain A； UniProt 1–119 Not recorded HBx BH3-like motif × 1 （Q913A9） SOLUTION NMR NMR measurement conditions：pH 7；298 K；Ionic strength (raw mmCIF value) 50；Pressure 1 NMR sample composition：0.4 mM [U-13C; U-15N] LC3B, 0.5 mM [U-13C; U-15N] HBx BH3-like motif, 95% H2O/5% D2O | 95% H2O/5% D2O NMR sample composition：0.8 mM 1H LC3B, 0.4 mM [U-13, U-15N] HBx BH3-like motif, 95% H2O/5% D2O | 95% H2O/5% D2O NMR sample composition：0.4 mM [U-15N] LC3B, 0.5 mM [U-15N] HBx BH3-like motif, 95% H2O/5% D2O | 95% H2O/5% D2O NMR sample composition：0.5 mM [U-13, U-15N] LC3B, 0.625 mM 1H HBx BH3-like motif, 95% H2O/5% D2O | 95% H2O/5% D2O Resolution not provided

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 9VUY Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1V49 Solution structure of microtubule-associated protein light chain-3 Deposited 2003-11-11 Different construct Different oligomeric state Different experimental conditions Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 0–119（120 aa） Fragment：residues 1-120
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 7；298 K；Ionic strength (raw mmCIF value) 230；Pressure 1
NMR sample composition 0.8mM protein U-15N, 13C; 25mM phosphate buffer NA; 100mM NACL; 90% H2O, 10% D2O | 90% H2O/10% D2O
NMR sample composition 0.8mM protein U-15N, 13C; 25mM phosphate buffer NA; 100mM NACL; 100% D2O | 100% D2O
Resolution not provided
2LUE LC3B OPTN-LIR Ptot complex structure Deposited 2012-06-13 Different construct Different experimental conditions Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 5–119（115 aa） Fragment：UNP RESIDUES 5-119
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 6.8；288 K；Ionic strength (raw mmCIF value) 0.05；Pressure ambient
NMR sample composition 0.6 mM [U-98% 13C; U-98% 15N] entity_1-1, 4.9 mM entity_2-2, 70 mM sodium phosphate-3, 30 mM sodium chloride-4, 0.3 mM DSS-5, 5 mM Protease inhibitors cocktail-6, 95% H2O/5% D2O | 95% H2O/5% D2O
NMR sample composition 2.5 mM [U-98% 13C; U-98% 15N] entity_1-7, 0.4 mM entity_2-8, 70 mM sodium phosphate-9, 30 mM sodium chloride-10, 0.3 mM DSS-11, 5 mM Protease inhibitors cocktail-12, 95% H2O/5% D2O | 95% H2O/5% D2O
Resolution not provided
2N9X LC3 FUNDC1 complex structure Deposited 2015-12-14 Different construct Different experimental conditions Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 1–120（120 aa）
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 7；298 K；Ionic strength (raw mmCIF value) 0.15；Pressure ambient
NMR sample composition 0.9 mM [U-13C; U-15N] entity_1-1, 1.8 mM entity_2-2, 100 mM sodium chloride-3, 25 mM sodium phosphate-4, 10 % [U-2H] D2O-5, 1 % DSS-6, 90% H2O/10% D2O | 90% H2O/10% D2O
Resolution not provided
2ZJD Crystal Structure of LC3-p62 complex Deposited 2008-03-05 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–125（125 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；288 K；0.1M HEPES pH 7.5, 23% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 288K
Resolution 1.56 Å R-free 0.238
2ZJD Crystal Structure of LC3-p62 complex Deposited 2008-03-05 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain C 1–125（125 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；288 K；0.1M HEPES pH 7.5, 23% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 288K
Resolution 1.56 Å R-free 0.238
2ZJD Crystal Structure of LC3-p62 complex Deposited 2008-03-05 Different construct Different experimental method Different experimental conditions Different structure-quality metrics Assembly 5 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 1–125（125 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；288 K；0.1M HEPES pH 7.5, 23% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 288K
Resolution 1.56 Å R-free 0.238
2ZJD Crystal Structure of LC3-p62 complex Deposited 2008-03-05 Different construct Different experimental method Different experimental conditions Different structure-quality metrics Assembly 6 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 1–125（125 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；288 K；0.1M HEPES pH 7.5, 23% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 288K
Resolution 1.56 Å R-free 0.238
3VTU Crystal structure of human LC3B_2-119 Deposited 2012-06-08 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 2–119（118 aa） Fragment：UNP RESIDUES 2-119
Not recorded SO4 SULFATE ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5.6；293 K；2.0M Ammonium sulfate, 0.1M Tri-sodium citrate, 0.2M Potassium sodium tartrate, pH 5.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 1.60 Å R-free 0.231
3VTV Crystal structure of Optineurin LIR-fused human LC3B_2-119 Deposited 2012-06-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 2–119（118 aa） Fragment：UNP RESIDUES 170-181, RESIDUES 2-119
Mutation：S170E, S171E, S173E, S174E, S177E SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；289 K；2.0M Ammonium sulfate, 0.05M Tri-sodium citrate, 0.1M Potassium sodium tartrate, 10% PEG 3350, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Resolution 1.70 Å R-free 0.252
3VTW Crystal structure of T7-tagged Optineurin LIR-fused human LC3B_2-119 Deposited 2012-06-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 2–119（118 aa） Fragment：UNP RESIDUES 170-181, RESIDUES 2-119
Mutation：S170E, S171E, S173E, S174E, S177E SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；289 K；2.0M Ammonium sulfate, 0.05M Tri-sodium citrate, 0.1M Potassium sodium tartrate, 5% Glycerol, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Resolution 2.52 Å R-free 0.280
3VTW Crystal structure of T7-tagged Optineurin LIR-fused human LC3B_2-119 Deposited 2012-06-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain B 2–119（118 aa） Fragment：UNP RESIDUES 170-181, RESIDUES 2-119
Mutation：S170E, S171E, S173E, S174E, S177E SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；289 K；2.0M Ammonium sulfate, 0.05M Tri-sodium citrate, 0.1M Potassium sodium tartrate, 5% Glycerol, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Resolution 2.52 Å R-free 0.280
3VTW Crystal structure of T7-tagged Optineurin LIR-fused human LC3B_2-119 Deposited 2012-06-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain C 2–119（118 aa） Fragment：UNP RESIDUES 170-181, RESIDUES 2-119
Mutation：S170E, S171E, S173E, S174E, S177E SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；289 K；2.0M Ammonium sulfate, 0.05M Tri-sodium citrate, 0.1M Potassium sodium tartrate, 5% Glycerol, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Resolution 2.52 Å R-free 0.280
3WAO Crystal structure of Atg13 LIR-fused human LC3B_2-119 Deposited 2013-05-06 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 2–119（118 aa） Fragment：RESIDUES 436-447, RESIDUES 2-119
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；0.1M Sodium citrate tribasic dihydrate 10% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.60 Å R-free 0.294
3WAO Crystal structure of Atg13 LIR-fused human LC3B_2-119 Deposited 2013-05-06 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain B 2–119（118 aa） Fragment：RESIDUES 436-447, RESIDUES 2-119
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；0.1M Sodium citrate tribasic dihydrate 10% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.60 Å R-free 0.294
3WAO Crystal structure of Atg13 LIR-fused human LC3B_2-119 Deposited 2013-05-06 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain C 2–119（118 aa） Fragment：RESIDUES 436-447, RESIDUES 2-119
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；0.1M Sodium citrate tribasic dihydrate 10% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.60 Å R-free 0.294
3WAO Crystal structure of Atg13 LIR-fused human LC3B_2-119 Deposited 2013-05-06 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 4 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain D 2–119（118 aa） Fragment：RESIDUES 436-447, RESIDUES 2-119
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；0.1M Sodium citrate tribasic dihydrate 10% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.60 Å R-free 0.294
3X0W Crystal structure of PLEKHM1 LIR-fused human LC3B_2-119 Deposited 2014-10-22 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 2–119（118 aa） Fragment：UNP RESIDUES 2-119
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；293 K；0.1M Acetate, pH 5.0, 1.4M Ammonium Sulfate, 0.1M NaCl, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.71 Å R-free 0.294
3X0W Crystal structure of PLEKHM1 LIR-fused human LC3B_2-119 Deposited 2014-10-22 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 2–119（118 aa） Fragment：UNP RESIDUES 2-119
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；293 K；0.1M Acetate, pH 5.0, 1.4M Ammonium Sulfate, 0.1M NaCl, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.71 Å R-free 0.294
4WAA Crystal structure of Nix LIR-fused human LC3B_2-119 Deposited 2014-08-29 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: Monomeric
Chain A 2–119（118 aa） Fragment：UNP residues 2-119
Chain B 2–119（118 aa） Fragment：UNP residues 2-119
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4；300 K；20% PEG3350, 8% Tacsimate pH 4
Resolution 2.35 Å R-free 0.273
5D94 Crystal structure of LC3-LIR peptide complex Deposited 2015-08-18 Different construct Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 1–125（125 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；0.1M Potassium thiocyanate, 30%(w/v) Polyethylene glycol monomethyl ether 2000
Resolution 1.53 Å R-free 0.215
5DCN Crystal structure of LC3 in complex with TECPR2 LIR Deposited 2015-08-24 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 2–119（118 aa） Fragment：UNP residues 2-119
Not recorded SO4 SULFATE ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；1.8M Lithium sulphate, 0.01M Magnesium chloride, 0.05M MES monohydrate, pH5.6
Resolution 2.00 Å R-free 0.247
5GMV LC3B-FUNDC1 complex Deposited 2016-07-17 Different construct Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 1–125（125 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；30% PEG MME 2000, 0.1mM sodium cacodylate (pH 6.0)
Resolution 2.25 Å R-free 0.272
5GMV LC3B-FUNDC1 complex Deposited 2016-07-17 Different construct Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 1–125（125 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；30% PEG MME 2000, 0.1mM sodium cacodylate (pH 6.0)
Resolution 2.25 Å R-free 0.272
5MS2 Crystal structure of the Legionella pneumophila effector protein RavZ in complex with human LC3B Deposited 2016-12-30 Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 1–119（119 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；277.15 K；0.17 M ammonium acetate, 0.085M tri sodium citrate, 25.5% PEG 4000 and 15% glycerol
Resolution 2.47 Å R-free 0.238
5MS5 Low-salt structure of RavZ LIR2-fused human LC3B Deposited 2016-12-31 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 2–119（118 aa）
Not recorded SO4 SULFATE ION × 2 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293.15 K；0.1 M citric acid anhydrous and 1.6 M ammonium sulfate
Resolution 1.53 Å R-free 0.242
5MS5 Low-salt structure of RavZ LIR2-fused human LC3B Deposited 2016-12-31 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain B 2–119（118 aa）
Not recorded SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293.15 K；0.1 M citric acid anhydrous and 1.6 M ammonium sulfate
Resolution 1.53 Å R-free 0.242
5MS6 High-salt structure of RavZ LIR2-fused human LC3B Deposited 2016-12-31 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 2–119（118 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；277.15 K；0.1 M sodium acetate and 3 M NaCl
Resolution 1.90 Å R-free 0.261
5MS6 High-salt structure of RavZ LIR2-fused human LC3B Deposited 2016-12-31 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 2–119（118 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；277.15 K；0.1 M sodium acetate and 3 M NaCl
Resolution 1.90 Å R-free 0.261
5V4K Crystal structure of NEDD4 LIR-fused human LC3B_2-119 Deposited 2017-03-09 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 2–119（118 aa） Fragment：UNP residues 2-119,UNP residues 2-119,UNP residues 2-119,UNP residues 2-119
Chain B 2–119（118 aa） Fragment：UNP residues 2-119,UNP residues 2-119,UNP residues 2-119,UNP residues 2-119
Not recorded GOL GLYCEROL × 2 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；277 K；0.1M Sodium Acetate pH 5.0, 1.2M Ammonium Sulfate
Resolution 2.10 Å R-free 0.233
5W9A The structure of the Trim5alpha Bbox- coiled coil in complex LC3B Deposited 2017-06-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 4–117（114 aa） Fragment：UNP residues 2-119
Chain D 4–117（114 aa） Fragment：UNP residues 2-119
Not recorded ZN ZINC ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8；291 K；0.2 M NH4Cl, 0.1 M Tris pH8, 20% PEG 6,000
Resolution 2.74 Å R-free 0.274
5XAC CLIR - LC3B Deposited 2017-03-12 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric
Chain A 2–120（119 aa）
Chain B 2–120（119 aa）
Chain C 2–120（119 aa）
Chain D 2–120（119 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；PEG 3,350, 0.1M HEPES pH 7.5, 200mM NaCl.
Resolution 1.70 Å R-free 0.245
5XAD NLIR - LC3B fusion protein Deposited 2017-03-12 Different construct Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 2–120（119 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 9.5；293 K；1.0 M Ammonium sulfate, 100mM CHES/NaOH pH 9.5, 200mM NaCl.
Resolution 1.88 Å R-free 0.253
5XAD NLIR - LC3B fusion protein Deposited 2017-03-12 Different construct Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 2–120（119 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 9.5；293 K；1.0 M Ammonium sulfate, 100mM CHES/NaOH pH 9.5, 200mM NaCl.
Resolution 1.88 Å R-free 0.253
5XAE mutNLIR_LC3B Deposited 2017-03-12 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric
Chain A 2–120（119 aa）
Chain B 2–120（119 aa）
Chain C 2–120（119 aa）
Chain D 2–120（119 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；Pentaerythritol propoxylate, 0.1M HEPES pH 7.0, 0.2M Potassium chloride.
Resolution 2.00 Å R-free 0.259
6J04 Crystal structure of full length human LC3B delta G120 mutant (2_125) Deposited 2018-12-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 2–125（124 aa） Fragment：UNP residues 2-125
Chain C 2–125（124 aa） Fragment：UNP residues 2-125
Mutation：deletion mutant G120 Mutation：deletion mutant G120 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.6；293 K；0.16M ammonium sulfate, 0.08M sodium acetate pH4.6, 20% (w/v) PEG4000; 20% (v/v) glycerol
Resolution 1.90 Å R-free 0.262
6J04 Crystal structure of full length human LC3B delta G120 mutant (2_125) Deposited 2018-12-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain B 2–125（124 aa） Fragment：UNP residues 2-125
Chain D 2–125（124 aa） Fragment：UNP residues 2-125
Mutation：deletion mutant G120 Mutation：deletion mutant G120 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.6；293 K；0.16M ammonium sulfate, 0.08M sodium acetate pH4.6, 20% (w/v) PEG4000; 20% (v/v) glycerol
Resolution 1.90 Å R-free 0.262
6LAN Structure of CCDC50 and LC3B complex Deposited 2019-11-12 Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric
Chain A 2–125（124 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；294 K；20% v/v 2-Propanol, 0.1 M sodium citrate pH 5.6, 20% w/v PEG 2000 MME
Resolution 1.41 Å R-free 0.219
7ELG LC3B modificated with a covalent probe Deposited 2021-04-10 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 2–119（118 aa）
Not recorded 8Z6 2-methylidene-5-thiophen-2-yl-cyclohexane-1,3-dione × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293.15 K；2.0M ammonium sulfate, 0.1M tri-sodium citrate (pH 5.6), 0.2M potassium sodium tartrate
Resolution 1.60 Å R-free 0.231
7GA8 PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z1198158918 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 K4R 1H-indazole-3-carbonitrile × 1 EDO 1,2-ETHANEDIOL × 8 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.87 Å R-free 0.274
7GA9 PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z1198177230 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 K6U (2M)-2-(2-methoxyphenyl)-1,3,4-oxadiazole × 1 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 2.17 Å R-free 0.246
7GAA PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z1198233191 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 K7L (4S)-imidazo[1,2-a]pyrimidine-5,7-diol × 1 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 2.03 Å R-free 0.248
7GAB PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z1255402624 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 EYK 2-tert-butylbenzene-1,4-diol × 1 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 2.23 Å R-free 0.276
7GAC PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z1456069604 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 KF8 N-[(3S)-piperidin-3-yl]benzamide × 1 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.91 Å R-free 0.260
7GAD PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z1667545918 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 K8L N-[(1,3-thiazol-5-yl)methyl]acetamide × 2 EDO 1,2-ETHANEDIOL × 8 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.86 Å R-free 0.258
7GAE PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z1688504114 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 GV4 2-cyano-~{N}-(1,3,5-trimethylpyrazol-4-yl)ethanamide × 1 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.92 Å R-free 0.251
7GAF PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z183352334 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 K96 N-{[(2R)-oxolan-2-yl]methyl}morpholine-4-carboxamide × 1 EDO 1,2-ETHANEDIOL × 8 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.84 Å R-free 0.245
7GAG PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z198195770 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 LJA N-[3-(carbamoylamino)phenyl]acetamide × 1 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.59 Å R-free 0.215
7GAH PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z2033637875 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 LRF N~2~-(4-cyano-3-methyl-1,2-thiazol-5-yl)-N~2~-methylglycinamide × 1 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.90 Å R-free 0.254
7GAI PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z212122838 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 K9N N-[(4-methyl-1,3-thiazol-2-yl)methyl]cyclobutanecarboxamide × 1 EDO 1,2-ETHANEDIOL × 8 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.97 Å R-free 0.281
7GAJ PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z285233820 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 KB3 (5M)-5-(2-methoxyphenyl)-1,3,4-oxadiazol-2-amine × 1 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.89 Å R-free 0.229
7GAK PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z287121492 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 KA3 N-(cyclopropylmethyl)-4-methoxypiperidine-1-carboxamide × 1 EDO 1,2-ETHANEDIOL × 8 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.77 Å R-free 0.250
7GAL PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z291279160 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 LV4 1-[2-(trifluoromethyloxy)phenyl]thiourea × 1 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.91 Å R-free 0.251
7GAM PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z373768900 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 NUA N-(1-ethyl-1H-pyrazol-4-yl)cyclobutanecarboxamide × 1 EDO 1,2-ETHANEDIOL × 8 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.75 Å R-free 0.234
7GAN PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z56767614 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 RWP methyl 4-[(trifluoroacetyl)amino]benzoate × 1 EDO 1,2-ETHANEDIOL × 8 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 2.09 Å R-free 0.256
7GAO PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z57450788 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 RV4 N-{4-[(morpholin-4-yl)methyl]phenyl}acetamide × 1 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.69 Å R-free 0.218
7GAP PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z728939702 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 KCC N-methylquinoxalin-2-amine × 1 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.68 Å R-free 0.244
7GAQ PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z755044716 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 K0J N-ethyl-1H-1,2,3-triazole-4-carboxamide × 1 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 2.14 Å R-free 0.244
7GAR PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z820676436 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 2NU 2-(4-bromanylpyrazol-1-yl)-~{N}-cyclopropyl-~{N}-methyl-ethanamide × 1 EDO 1,2-ETHANEDIOL × 8 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 2.07 Å R-free 0.264
7GAS PanDDA analysis group deposition -- Crystal Structure of MAP1LC3B in complex with Z952016136 Deposited 2023-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 KBU 4-chloro-1H-benzimidazole × 1 EDO 1,2-ETHANEDIOL × 8 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.91 Å R-free 0.276
7GAU PanDDA analysis group deposition of ground-state model of MAP1LC3B Deposited 2023-08-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–120（120 aa）
Mutation：TruncationafterGly120 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.59 Å R-free 0.217
8Q53 Crystal structure of truncated human Microtubule-associated proteins 1A/1B light chain 3B (MAP1LC3B) in apo form Deposited 2023-08-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 1–125（125 aa）
Mutation：Truncation after Gly120 EDO 1,2-ETHANEDIOL × 9 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.7；293 K；36% PEG 8000, 0.1M acetate pH 4.7
Resolution 1.36 Å R-free 0.210
8Q7K IRGQ LIR2 peptide in complex with LC3B Deposited 2023-08-16 Different construct Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 1–125（125 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4；293 K；1 M lithium chloride, 0.1 M citrate, 20% PEG 6000
Resolution 1.60 Å R-free 0.213
8Q7K IRGQ LIR2 peptide in complex with LC3B Deposited 2023-08-16 Different construct Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 1–125（125 aa）
Not recorded EDO 1,2-ETHANEDIOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4；293 K；1 M lithium chloride, 0.1 M citrate, 20% PEG 6000
Resolution 1.60 Å R-free 0.213
8YV6 Crystal structure of LC3B in complex with Influenza A virus M2 peptide Deposited 2024-03-28 Different construct Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 1–125（125 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；30% Jeffamine, 0.1M HEPES, pH 7.0
Resolution 1.75 Å R-free 0.250

49 other PDB entries and 64 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name MLP3B_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–119； UniProt 1–119

HBx BH3-like motif

Hepatitis B virus

UniProt Q913A9

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric（2） Consistent with protein copy count Chain B； UniProt 116–127 Not recorded Microtubule-associated protein 1 light chain 3 beta × 1 （Q9GZQ8） SOLUTION NMR NMR measurement conditions：pH 7；298 K；Ionic strength (raw mmCIF value) 50；Pressure 1 NMR sample composition：0.4 mM [U-13C; U-15N] LC3B, 0.5 mM [U-13C; U-15N] HBx BH3-like motif, 95% H2O/5% D2O | 95% H2O/5% D2O NMR sample composition：0.8 mM 1H LC3B, 0.4 mM [U-13, U-15N] HBx BH3-like motif, 95% H2O/5% D2O | 95% H2O/5% D2O NMR sample composition：0.4 mM [U-15N] LC3B, 0.5 mM [U-15N] HBx BH3-like motif, 95% H2O/5% D2O | 95% H2O/5% D2O NMR sample composition：0.5 mM [U-13, U-15N] LC3B, 0.625 mM 1H HBx BH3-like motif, 95% H2O/5% D2O | 95% H2O/5% D2O Resolution not provided

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

No other PDB entry for the same UniProt protein was found.

View Construct and Data Evidence
UniProt name X_HBVC7
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 3–14； UniProt 116–127

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 9vuy

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 9vuy
Download Download
▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id9vuy
Deposition date deposition_date2025-07-14
最后修订 last_revision2026-05-27
Structure title titleNMR Structure of LC3B in complex with HBx BH3-like motif
Keywords keywordsComplex, HBx, LC3B, VIRAL PROTEIN; VIRAL PROTEIN
Experimental Method methodSOLUTION NMR
▼

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier15.92 Å
Radius of gyration Rg (electron density) rg_electron15.33 Å
Forward intensity I(0) i01296060000.00
Molecular weight molecular_weight313460.0 kDa
Excluded volume excluded_volume395520 ų
Envelope volume envelope_volume40131 ų
Hydration-shell volume shell_volume18608 ų
Envelope diameter envelope_diameter55.5 Å
Shell Rg shell_rg24.27 Å
Envelope Rg envelope_rg18.35 Å
Shape Rg shape_rg15.29 Å
Total Rg total_rg15.62 Å
Total atoms total_atoms44280
Residues n_residues2660
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3
▼

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax50.1 Å
Rg (real space) rg_real15.82 Å
Rg uncertainty (real space) rg_real_error0.22 Å
I(0) (real space) i0_real1.2960e+09
I(0) uncertainty (real space) i0_real_error1.2720e+07
Rg (reciprocal space) rg_reciprocal15.83 Å
I(0) (reciprocal space) i0_reciprocal1296000000.0000
Solution quality estimate total_estimate0.8919
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary19.0 Å
Skewness Skewness skewness0.084
Kurtosis Kurtosis kurtosis-0.414
Angular range angular_range— – 0.5000 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha464400.0000
Real-space data points n_real_points80
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.871; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.991; Smooth: 0.985
▶

5. Crystallography and Experiment 5. Crystallography & Experiment

▶

6. Entities and Polymers Entities & Polymers (2)

▶

8. Citations (1)

▶

9. Files and Curves (10)