Lysozyme
OrganismNot specified
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 monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count | Chain A； UniProt 19–147 | Not recorded | NA SODIUM ION × 1 CL CHLORIDE ION × 4 | X-RAY DIFFRACTION X-ray crystallization conditions：LIQUID DIFFUSION；pH 4.6；296 K；PEG 6000, NaCl, Na Acetate | Resolution 1.60 Å R-free 0.220 |
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 6W7P | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 3OTP Crystal structure of the DegP dodecamer with a model substrate Deposited 2010-09-13 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 24 PDB declaration: 24-meric |
Chain G
36–76（41 aa）
Fragment：a model peptide substrate
Chain H
36–76（41 aa）
Fragment：a model peptide substrate
Chain I
36–76（41 aa）
Fragment：a model peptide substrate
Chain J
36–76（41 aa）
Fragment：a model peptide substrate
Chain K
36–76（41 aa）
Fragment：a model peptide substrate
Chain L
36–76（41 aa）
Fragment：a model peptide substrate
|
Mutation：C30S Mutation：C30S Mutation：C30S Mutation：C30S Mutation：C30S Mutation：C30S | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 3.6；291 K；65 mM citric acid, 35 mM Bis-Tris propane, 8% PEG3350, pH 3.6, VAPOR DIFFUSION, HANGING DROP, temperature 18K, temperature 291K
|
Resolution 3.76 Å R-free 0.251 |
| 5A3Z Structure of monoclinic Lysozyme obtained by multi crystal data collection Deposited 2015-06-04 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
1–147（147 aa）
|
Not recorded | NO3 NITRATE ION × 1 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 1.59 Å R-free 0.265 |
| 5A3Z Structure of monoclinic Lysozyme obtained by multi crystal data collection Deposited 2015-06-04 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain B
1–147（147 aa）
|
Not recorded | NO3 NITRATE ION × 1 GOL GLYCEROL × 1 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 1.59 Å R-free 0.265 |
| 6PBB Crystal structure of Hen Egg White Lysozyme in complex with I3C Deposited 2019-06-13 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
19–147（129 aa）
|
Not recorded | I3C 5-amino-2,4,6-triiodobenzene-1,3-dicarboxylic acid × 4 CL CHLORIDE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.1；289 K；0.2 M Ammonium acetate, 20% w/v Polyethylene glycol 3,350
|
Resolution 1.89 Å R-free 0.240 |
| 6PL9 Adduct formed after 1 month in the reaction of dichlorido(1,3-dimethylbenzimidaz ol-2-ylidene)(eta5-pentamethylcyclopentadienyl)rhodium(III) with HEWL Deposited 2019-06-30 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
19–147（129 aa）
|
Not recorded | ORS dichloro[(1,2,3,4,5-eta)-pentamethylcyclopentadienyl]rhodium × 1 R1N 2-(1-chloranyl-2,3,4,5,6-pentamethyl-1$l^{7}-rhodapentacyclo[2.2.0.0^{1,3}.0^{1,5}.0^{2,6}]hexan-1-yl)-1,3-dimethyl-benzimidazole × 1 NA SODIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；297 K；Hen egg white lysozyme (100mg/mL), 0.8 M sodium chloride, and 0.1 M sodium acetate pH 4.7. Rh(III)(Cp*)(1,3-dimethylbenzimidazol-2-ylidene)(Cl)2 (1.09 mg, 1 mg/mL) soak occurred in 0.8 M sodium nitrate and 0.1 M sodium acetate pH 4.7
|
Resolution 1.20 Å R-free 0.203 |
| 6PLA Adducts formed after 1 month in the reaction of dichlorido(1,3-dimethylbenzimidazol-2-ylidene)(eta6-p-cymene)osmium(II) with HEWL Deposited 2019-06-30 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
19–147（129 aa）
|
Not recorded | NA SODIUM ION × 1 O1N dichlorido(1,3-dimethylbenzimidazol-2-ylidene)(eta6-p-cymene)osmium(II) × 2 OS OSMIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；297 K；Hen egg white lysozyme (100mg/mL), 0.8 M sodium chloride, and 0.1 M sodium acetate pH 4.7. Os(II)(cymene)(1,3-dimethylbenzimidazol-2-ylidene)(Cl)2 (1.04 mg, 1 mg/mL) soak occurred in 0.8 M sodium nitrate and 0.1 M sodium acetate pH 4.7
|
Resolution 1.25 Å R-free 0.184 |
| 6PLB Adducts formed after 1 month in the reaction of dichlorido(1,3-dimethylbenzimida zol-2-ylidene)(eta5-pentamethylcyclopentadienyl)iridium(III) with HEWL Deposited 2019-06-30 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
19–147（129 aa）
|
Not recorded | OT1 2-(1-chloranyl-2,3,4,5,6-pentamethyl-1$l^{7}-iridapentacyclo[2.2.0.0^{1,3}.0^{1,5}.0^{2,6}]hexan-1-yl)-1,3-dimethyl-benzimidazole × 1 NA SODIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；297 K；Hen egg white lysozyme (100mg/mL), 0.8 M sodium chloride, and 0.1 M sodium acetate pH 4.7. Ir(III)(Cp*)(1,3-dimethylbenzimidazol-2-ylidene)(chlorido)2 (1.13 mg, 1 mg/mL) soak occurred in 0.8 M sodium nitrate and 0.1 M sodium acetate pH 4.7
|
Resolution 1.30 Å R-free 0.190 |
| 6W8E Crystal Structure Analysis of Space-grown Lysozyme Deposited 2020-03-20 | Different ligand/ion Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
19–147（129 aa）
|
Not recorded | CL CHLORIDE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
LIQUID DIFFUSION；pH 4.6；296 K；PEG 6000, NaCl, Na Acetate
|
Resolution 2.68 Å R-free 0.306 |
| 6WEB Multi-Hit SFX using MHz XFEL sources Deposited 2020-04-01 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
19–147（129 aa）
|
Not recorded | ACT ACETATE ION × 1 EDO 1,2-ETHANEDIOL × 1 CL CHLORIDE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
BATCH MODE；pH 3.5；293 K；NaCl, ethylene glycol, PEG 3350, acetate buffer pH 3.5
|
Resolution 2.10 Å R-free 0.216 |
| 6WEC Multi-Hit SFX using MHz XFEL sources Deposited 2020-04-01 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
19–147（129 aa）
|
Not recorded | CL CHLORIDE ION × 3 EDO 1,2-ETHANEDIOL × 5 ACT ACETATE ION × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
BATCH MODE；pH 3.5；293 K；NaCl, ethylene glycol, PEG 3350, acetate buffer pH 3.5
|
Resolution 2.10 Å R-free 0.299 |
| 6WGO The interaction of dichlorido(3-(anthracen-9-ylmethyl)-1-methylimidazol-2-ylidene)(eta6-p-cymene)ruthenium(II) with HEWL after 1 week Deposited 2020-04-06 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
19–147（129 aa）
|
Not recorded | NA SODIUM ION × 1 ACT ACETATE ION × 2 U0J {(2R)-1-[(anthracen-9-yl)methyl]-3-methyl-2,3-dihydro-1H-imidazol-2-yl}(dichloro)ruthenium × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 4.7；291 K；0.1 M Sodium Acetate pH 4.7 and 0.8 M Sodium Chloride
|
Resolution 1.30 Å R-free 0.192 |
| 6WRL The interaction of chlorido(1,5-cyclooctadiene)([4-(2-((tert-butoxycarbonyl)amino)-3-methoxy-3-oxopropyl)-1,3-dimethyl-1H-imidazol-3-ide])rhodium(I) with HEWL after 1 week Deposited 2020-04-29 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
19–147（129 aa）
|
Not recorded | NA SODIUM ION × 1 ACT ACETATE ION × 3 RH Rhodium × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 4.7；291 K；0.1 M Sodium Acetate pH 4.7 and 0.8 M Sodium Chloride
|
Resolution 1.35 Å R-free 0.215 |
| 6WRM The interaction of chlorido(1,5-cyclooctadiene)([4-(2-((tert-butoxycarbonyl)amino)-3-methoxy-3-oxopropyl)-1,3-dimethyl-1H-imidazol-3-ide])rhodium(I) with HEWL after 1 month Deposited 2020-04-29 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
19–147（129 aa）
|
Not recorded | NA SODIUM ION × 1 CL CHLORIDE ION × 2 RH Rhodium × 1 U8G (4-{2-[(tert-butoxycarbonyl)amino]-3-methoxy-3-oxopropyl}-1,3-dimethyl-2,3-dihydro-1H-imidazol-2-yl)rhodium × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 4.7；291 K；0.1 M Sodium Acetate pH 4.7 and 0.8 M Sodium Chloride
|
Resolution 1.55 Å R-free 0.249 |
| 6WX5 Adducts formed after 3 weeks in the reaction of chlorido[chlorido(2,2'-((2-([2,2':6',2''-Terpyridin]-4'-yloxy)ethyl)azanediyl)bis(ethan-1-ol))platinum(II)] with HEWL Deposited 2020-05-09 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
19–147（129 aa）
|
Not recorded | NA SODIUM ION × 1 ACT ACETATE ION × 1 PT PLATINUM (II) ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 4.7；291 K；0.1 M Sodium Acetate pH 4.7 and 0.8 M Sodium Chloride pH 4.7
|
Resolution 1.30 Å R-free 0.202 |
| 7D0W Crystal structure of Hen Egg White Lysozyme Deposited 2020-09-12 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
19–147（129 aa）
|
Not recorded | CL CHLORIDE ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 5.6；298.15 K；PEG 3000, TRIS pH 5.6
|
Resolution 1.80 Å R-free 0.226 |
14 other PDB entries and 15 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | B8YK79_CHICK |
| Isoform | — |
| PDB entities | 1 |
| Chains and sequence ranges | Author chain A； PDBConstruct 1–129； UniProt 19–147 |
