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Protein Structures and Oligomeric States

Enter a protein name, UniProt accession or PDB ID. Name searches ask you to confirm the protein identity before related structures are queried.

Current Protein Identity：Q62768 New Search
13PDB entries
16Biological assembly
49chain/assembly records
Main Difference Dimensions in This Set
Different construct Different mutation/modification Different assembly state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics

Difference tags compare only the current result set; every original PDB and assembly record remains separate.

Related-Structure Differences

Each row represents one biological assembly in one PDB entry; multiple monomers of the same protein are listed separately.

PDB Entry Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Experimental Method Experimental Conditions Structure Quality
1Y8F Solution structure of the munc13-1 C1-domain Deposited 2004-12-12 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 567–616（50 aa） Fragment：C1-domain (residues 567-616)
Not recorded ZN ZINC ION × 2 SOLUTION NMR
NMR measurement conditions pH 7；298 K；Ionic strength (raw mmCIF value) 150mM NaCl；Pressure ambient
NMR sample composition 1.5mM munc13-1 C1-domain U-15N, 40mM HEPES (pH 7.0), 150mM NaCl, 50uM ZnCl2 | 40mM HEPES (pH 7.0), 150mM NaCl, 50uM ZnCl2
NMR sample composition 1.5mM munc13-1 C1-domain U-15N,13C, 40mM HEPES (pH 7.0), 150mM NaCl, 50uM ZnCl2 | 40 mM HEPES (pH 7.0), 150 mM NaCl, 50 uM ZnCl2
Resolution not provided
2CJS Structural Basis for a Munc13-1 Homodimer - Munc13-1 - RIM Heterodimer Switch: C2-domains as Versatile Protein-Protein Interaction Modules Deposited 2006-04-06 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain A 2–150（149 aa） Fragment：C2A DOMAIN, RESIDUES 2-150
Chain B 2–150（149 aa） Fragment：C2A DOMAIN, RESIDUES 2-150
Mutation：YES Mutation：YES EDO 1,2-ETHANEDIOL × 5 GOL GLYCEROL × 6 ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.5；293 K；VAPOR DIFFUSION; HANGING DROP; PROTEIN: 10 MG/ML MUNC13-1/RIM2ALPHA IN 30 MM TRIS, 150 MM NACL AND 1 MM TCEP, PH 7.4); RESERVOIR: 0.3 M AMMONIUM TARTRATE (PH 7.0); DROP: 1 MICROLITER PROTEIN PLUS 1 MICROLITER RESERVOIR; TEMPERATURE: 20 DEGREES CELSIUS; CRYSTALS APPEARED OVERNIGHT AND GREW TO A FINAL SIZE OF ABOUT 0.06 MM X 0.06 MM X 0.25 MM WITHIN 4 DAYS.
Resolution 1.78 Å R-free 0.219
2CJT Structural Basis for a Munc13-1 Homodimer - Munc13-1 - RIM Heterodimer Switch: C2-domains as Versatile Protein-Protein Interaction Modules Deposited 2006-04-06 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 1–128（128 aa） Fragment：C2A DOMAIN, RESIDUES 1-128
Chain C 1–128（128 aa） Fragment：C2A DOMAIN, RESIDUES 1-128
Not recorded EDO 1,2-ETHANEDIOL × 11 FMT FORMIC ACID × 7 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.5；293 K；VAPOR DIFFUSION; HANGING DROP; PROTEIN: 12 MG/ML MUNC13-1 IN 30 MM TRIS, 150 MM NACL AND 1 MM TCEP, PH 7.4; RESERVOIR: 0.4 M MAGNESIUM FORMATE, 0.1 M SODIUM ACETATE (PH 4.5); DROP: 1 MICROLITER PROTEIN PLUS 1 MICROLITER RESERVOIR; TEMPERATURE: 20 DEGREES CELSIUS; CRYSTALS APPEARED OVERNIGHT AND GREW TO A FINAL SIZE OF ABOUT 0.05 MM X 0.05 MM X 0.35 MM WITHIN 3 DAYS.
Resolution 1.44 Å R-free 0.188
2CJT Structural Basis for a Munc13-1 Homodimer - Munc13-1 - RIM Heterodimer Switch: C2-domains as Versatile Protein-Protein Interaction Modules Deposited 2006-04-06 Assembly 2 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 1–128（128 aa） Fragment：C2A DOMAIN, RESIDUES 1-128
Chain D 1–128（128 aa） Fragment：C2A DOMAIN, RESIDUES 1-128
Not recorded EDO 1,2-ETHANEDIOL × 12 FMT FORMIC ACID × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.5；293 K；VAPOR DIFFUSION; HANGING DROP; PROTEIN: 12 MG/ML MUNC13-1 IN 30 MM TRIS, 150 MM NACL AND 1 MM TCEP, PH 7.4; RESERVOIR: 0.4 M MAGNESIUM FORMATE, 0.1 M SODIUM ACETATE (PH 4.5); DROP: 1 MICROLITER PROTEIN PLUS 1 MICROLITER RESERVOIR; TEMPERATURE: 20 DEGREES CELSIUS; CRYSTALS APPEARED OVERNIGHT AND GREW TO A FINAL SIZE OF ABOUT 0.05 MM X 0.05 MM X 0.35 MM WITHIN 3 DAYS.
Resolution 1.44 Å R-free 0.188
2KDU Structural basis of the Munc13-1/Ca2+-Calmodulin interaction: A novel 1-26 calmodulin binding motif with a bipartite binding mode Deposited 2009-01-19 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 458–492（35 aa） Fragment：UNP residues 458-492, Calmodulin binding domain
Not recorded CA CALCIUM ION × 4 SOLUTION NMR
NMR measurement conditions pH 6.8；308 K
NMR sample composition 10 mM calcium, 1.5 mM [U-99% 13C; U-99% 15N] calmodulin, 1.8 mM Munc13-1, 150 mM potassium chloride, 20 mM BIS-TRIS, 90% H2O/10% D2O | 90% H2O/10% D2O
NMR sample composition 10 mM calcium, 0.5 mM [U-99% 13C; U-99% 15N] Munc13-1, 0.6 mM calmodulin, 150 mM potassium chloride, 20 mM BIS-TRIS, 90% H2O/10% D2O | 90% H2O/10% D2O
NMR sample composition 10 mM calcium, 1.5 mM [U-99% 13C; U-99% 15N] calmodulin, 1.8 mM Munc13, 150 mM potassium chloride, 20 mM BIS-TRIS, 100% D2O | 100% D2O
Resolution not provided
3SWH Munc13-1, MUN domain, C-terminal module Deposited 2011-07-13 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 1148–1407（260 aa） Fragment：SEE REMARK 999
Chain A 1453–1531（79 aa） Fragment：SEE REMARK 999
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；293 K；18-25% PEG400, 0.1 M MES, pH 6.0, 0.15 M sodium chloride, 10% glycerol, 5 mM TCEP, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.65 Å R-free 0.302
3SWH Munc13-1, MUN domain, C-terminal module Deposited 2011-07-13 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 1148–1407（260 aa） Fragment：SEE REMARK 999
Chain B 1453–1531（79 aa） Fragment：SEE REMARK 999
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；293 K；18-25% PEG400, 0.1 M MES, pH 6.0, 0.15 M sodium chloride, 10% glycerol, 5 mM TCEP, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.65 Å R-free 0.302
4Y21 Crystal Structure of Munc13-1 MUN domain Deposited 2015-02-09 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 942–1407（466 aa） Fragment：MUN domain
Chain A 1453–1523（71 aa） Fragment：MUN domain
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.3；277 K；PEG 3350, Mg(NO3)2, MES
Resolution 2.90 Å R-free 0.252
5UE8 The crystal structure of Munc13-1 C1C2BMUN domain Deposited 2016-12-29 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 529–1407（879 aa） Fragment：C1C2BMUN domain (UNP residues 529-1407 and 1452-1531)
Chain A 1452–1531（80 aa） Fragment：C1C2BMUN domain (UNP residues 529-1407 and 1452-1531)
Mutation：;L756W mutation. Removal of alternatively spliced loop between residues 1407 and 1453, addition of two residues (EF) as cloning artifact. ; Mutation：;L756W mutation. Removal of alternatively spliced loop between residues 1407 and 1453, addition of two residues (EF) as cloning artifact. ; ZN ZINC ION × 2 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；0.2 M LiCl, 0.1 M Tris-HCl pH 8.0, 0.15 M NaCl, 12% PEG 10,000, 10% glycerol, 5 mM TCEP, 25% ethylene glycol
Resolution 3.35 Å R-free 0.290
5UE8 The crystal structure of Munc13-1 C1C2BMUN domain Deposited 2016-12-29 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 529–1407（879 aa） Fragment：C1C2BMUN domain (UNP residues 529-1407 and 1452-1531)
Chain B 1452–1531（80 aa） Fragment：C1C2BMUN domain (UNP residues 529-1407 and 1452-1531)
Mutation：;L756W mutation. Removal of alternatively spliced loop between residues 1407 and 1453, addition of two residues (EF) as cloning artifact. ; Mutation：;L756W mutation. Removal of alternatively spliced loop between residues 1407 and 1453, addition of two residues (EF) as cloning artifact. ; ZN ZINC ION × 2 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；0.2 M LiCl, 0.1 M Tris-HCl pH 8.0, 0.15 M NaCl, 12% PEG 10,000, 10% glycerol, 5 mM TCEP, 25% ethylene glycol
Resolution 3.35 Å R-free 0.290
5UF7 CRYSTAL STRUCTURE OF MUNC13-1 MUN DOMAIN Deposited 2017-01-03 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 942–1407（466 aa） Fragment：MUN DOMAIN (UNP residues 942-1407 and 1453-1531)
Chain A 1453–1531（79 aa） Fragment：MUN DOMAIN (UNP residues 942-1407 and 1453-1531)
Mutation：Removal of alternatively spliced loop between residues 1407 and 1453, addition of two residues (EF) as cloning artifact. Mutation：Removal of alternatively spliced loop between residues 1407 and 1453, addition of two residues (EF) as cloning artifact. No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；277 K；0.2 M Mg(NO3)2, 0.1 M MES pH 5.8 - 6.3, 0.15 M NaCl, 18-25% PEG 3350, 10% glycerol, 5 mM DTT, 30% ethylene glycol
Resolution 2.90 Å R-free 0.253
6A30 Crystal Structure of Munc13-1 MUN Domain and Synaptobrevin-2 Juxtamembrane Linker Region Deposited 2018-06-14 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 944–1407（464 aa） Fragment：MUN domain
Chain A 1453–1523（71 aa） Fragment：MUN domain
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；277.15 K；PEG 3350, magnesium nitrate, 2-(N-Morpholino)ethanesulfonic acid (MES)
Resolution 2.79 Å R-free 0.239
6NYC Munc13-1 C2B-domain, calcium free Deposited 2019-02-11 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 675–820（146 aa） Fragment：C2B domain, residues 675-820
Mutation：L756W CL CHLORIDE ION × 2 B3P 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.8；298 K；30% PEG-MME 2000, 0.1 M bis-tris propane pH 6.8, 0.1 M NaCl, 0.5 mM TCEP
Resolution 1.89 Å R-free 0.248
6NYT Munc13-1 C2B-domain, calcium bound Deposited 2019-02-12 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 675–820（146 aa） Fragment：C2B
Mutation：L756W CA CALCIUM ION × 2 CL CHLORIDE ION × 2 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.8；298 K；30% PEG-MME 2000, 0.1 M bis-tris propane pH 6.8, 0.1 M NaCl, 0.1 MM CaCl2, 0.5 mM TCEP
Resolution 1.37 Å R-free 0.169
7T7X Munc13-1 C1-C2B-MUN-C2C Upright conformation spanning two lipid bilayers Deposited 2021-12-15 Assembly 1 Insufficient information Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 529–1407（879 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE；blot for 5 sec before plunging, blot force -1
Resolution 10.00 Å
7T81 Model of Munc13-1 C1-C2B-MUN-C2C 2D crystal between lipid bilayers. Deposited 2021-12-15 Assembly 1 Insufficient information Homooligomer；Protein × 24 PDB declaration: 24-meric（24） Consistent with protein count
Chain A 529–1407（879 aa）
Chain C 529–1407（879 aa）
Chain D 529–1407（879 aa）
Chain E 529–1407（879 aa）
Chain F 529–1407（879 aa）
Chain G 529–1407（879 aa）
Chain H 529–1407（879 aa）
Chain I 529–1407（879 aa）
Chain J 529–1407（879 aa）
Chain K 529–1407（879 aa）
Chain L 529–1407（879 aa）
Chain M 529–1407（879 aa）
Chain N 529–1407（879 aa）
Chain O 529–1407（879 aa）
Chain P 529–1407（879 aa）
Chain Q 529–1407（879 aa）
Chain R 529–1407（879 aa）
Chain S 529–1407（879 aa）
Chain T 529–1407（879 aa）
Chain U 529–1407（879 aa）
Chain V 529–1407（879 aa）
Chain W 529–1407（879 aa）
Chain X 529–1407（879 aa）
Chain Y 529–1407（879 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE；blot for 5 sec before plunging, blot force -1
Resolution 10.00 Å

This page presents structural evidence recorded in PDB/mmCIF.“No recorded non-water small molecule” does not prove that the experimental sample was ligand-free; experimental conditions belong to the PDB experiment, while ligands and copy counts are shown for each biological assembly.