ASPARTATE 1-DECARBOXYLASE BETA CHAIN
ESCHERICHIA COLI
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 homooligomer Homooligomer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count | Chain A; UniProt 1–24 Chain B; UniProt 25–119 | Fragment:RESIDUES 25-119 Mutation:YES Non-standard monomer:Yes (specific site not provided by mmCIF) | PEG DI(HYDROXYETHYL)ETHER × 1 SCN THIOCYANATE ION × 2 | X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 6.8;ADC.PANZ COMPLEX WAS PREPARED IN A 10: 11 RATIO AT A FINAL CONCENTRATION OF 5.7 MG/ML WITH A 2-FOLD MOLAR EXCESS (RELATIVE TO PANZ) OF ACETYLCOA IN 0.05 M TRIS-HCL PH 7.69, 0.1 M NACL, 0.1 MM DTT. THIS WAS MIXED IN A 1:1 RATIO WITH RESERVOIR SOLUTION (0.2 M POTASSIUM THIOCYANATE, 0.1 M BIS- TRIS PROPANE PH 6.8, 20 % W/V PEG 3350) AND CRYSTALLIZED BY HANGING DROP VAOUR DIFFUSION (4 UL DROPLET OVER A 1 ML RESERVOIR). | Resolution 1.90 Å R-free 0.244 |
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 4D7Z | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 1AW8 PYRUVOYL DEPENDENT ASPARTATE DECARBOXYLASE Deposited 1997-10-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 8 PDB declaration: octameric |
Chain A
1–24(24 aa)
Chain B
25–115(91 aa)
Chain D
1–24(24 aa)
Chain E
25–115(91 aa)
|
Non-standard monomer:Yes (specific site not provided by mmCIF) Non-standard monomer:Yes (specific site not provided by mmCIF) | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 4.6;PROTEIN WAS CRYSTALLIZED FROM 12% PEG 2000 MME, 0.1 M NA ACETATE, PH 4.6
|
Resolution 2.20 Å R-free 0.239 |
| 1PPY Native precursor of pyruvoyl dependent Aspartate decarboxylase Deposited 2003-06-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 4 PDB declaration: tetrameric |
Chain A
1–126(126 aa)
Chain B
1–126(126 aa)
|
Non-standard monomer:Yes (specific site not provided by mmCIF) Non-standard monomer:Yes (specific site not provided by mmCIF) | SO4 SULFATE ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 5.5;292 K;NH42SO4, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K
|
Resolution 1.95 Å R-free 0.195 |
| 1PQE S25A mutant of pyruvoyl dependent aspartate decarboxylase Deposited 2003-06-18 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 4 PDB declaration: tetrameric |
Chain A
1–126(126 aa)
|
Mutation:S25A | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 8;292 K;NH42SO4,Tris/HCL, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 292K
|
Resolution 1.95 Å R-free 0.205 |
| 1PQF Glycine 24 to Serine mutation of aspartate decarboxylase Deposited 2003-06-18 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 4 PDB declaration: tetrameric |
Chain A
1–126(126 aa)
Chain B
1–126(126 aa)
|
Mutation:G24S Non-standard monomer:Yes (specific site not provided by mmCIF) Mutation:G24S Non-standard monomer:Yes (specific site not provided by mmCIF) | SO4 SULFATE ION × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 4;292 K;NH42SO4, citric acid, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 292K
|
Resolution 2.00 Å R-free 0.185 |
| 1PQH Serine 25 to Threonine mutation of aspartate decarboxylase Deposited 2003-06-18 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 4 PDB declaration: tetrameric |
Chain A
1–126(126 aa)
Chain B
1–126(126 aa)
|
Mutation:S25T Non-standard monomer:Yes (specific site not provided by mmCIF) Mutation:S25T Non-standard monomer:Yes (specific site not provided by mmCIF) | NA SODIUM ION × 2 MLA MALONIC ACID × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 4;292 K;Sodium malonate, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 292K
|
Resolution 1.29 Å R-free 0.166 |
| 1PT0 Unprocessed Pyruvoyl Dependent Aspartate Decarboxylase with an Alanine insertion at position 26 Deposited 2003-06-22 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 4 PDB declaration: tetrameric |
Chain A
1–126(126 aa)
Chain B
1–126(126 aa)
|
Not recorded | SO4 SULFATE ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 4;290 K;1.4-1.6M Ammonium Sulphate, 0.1M Citric Acid, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 290K
|
Resolution 2.00 Å R-free 0.191 |
| 1PT1 Unprocessed Pyruvoyl Dependent Aspartate Decarboxylase with Histidine 11 Mutated to Alanine Deposited 2003-06-22 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 4 PDB declaration: tetrameric |
Chain A
1–126(126 aa)
Chain B
1–126(126 aa)
|
Mutation:H11A Mutation:H11A | SO4 SULFATE ION × 8 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 4;290 K;1.4-1.6M Ammonium Sulphate, 0.1M Citric Acid, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 290K
|
Resolution 1.90 Å R-free 0.170 |
| 1PYQ Unprocessed Aspartate Decarboxylase Mutant, with Alanine inserted at position 24 Deposited 2003-07-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 4 PDB declaration: tetrameric |
Chain A
1–126(126 aa)
Chain B
1–126(126 aa)
|
Not recorded | SO4 SULFATE ION × 8 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 4;290 K;0.1M citric acid, 1.6M ammonium sulphate, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 290K
|
Resolution 1.90 Å R-free 0.179 |
| 1PYU Processed Aspartate Decarboxylase Mutant with Ser25 mutated to Cys Deposited 2003-07-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 8 PDB declaration: octameric |
Chain A
1–24(24 aa)
Chain B
25–126(102 aa)
Chain C
1–24(24 aa)
Chain D
25–126(102 aa)
|
Mutation:S25C Mutation:S25C | SO4 SULFATE ION × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 4;290 K;0.1M citric acid, 1.6M ammonium sulphate, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 290K
|
Resolution 1.90 Å R-free 0.196 |
| 3TM7 Processed Aspartate Decarboxylase Mutant with Asn72 mutated to Ala Deposited 2011-08-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 8 PDB declaration: octameric |
Chain A
1–24(24 aa)
Chain B
25–126(102 aa)
Chain C
1–24(24 aa)
Chain D
25–126(102 aa)
|
Mutation:N72A Mutation:N72A | SO4 SULFATE ION × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 4;298 K;1.6-2.4M ammonium sulphate, 0.1M citric acid, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
|
Resolution 1.70 Å R-free 0.184 |
| 3TM7 Processed Aspartate Decarboxylase Mutant with Asn72 mutated to Ala Deposited 2011-08-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein homooligomer Homooligomer;Protein × 4 PDB declaration: tetrameric |
Chain A
1–24(24 aa)
Chain B
25–126(102 aa)
Chain C
1–24(24 aa)
Chain D
25–126(102 aa)
|
Mutation:N72A Mutation:N72A | SO4 SULFATE ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 4;298 K;1.6-2.4M ammonium sulphate, 0.1M citric acid, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
|
Resolution 1.70 Å R-free 0.184 |
| 4AOK Conformational dynamics of aspartate alpha-decarboxylase active site revealed by protein-ligand complexes: 1-methyl-L-aspartate complex Deposited 2012-03-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 8 PDB declaration: octameric |
Chain A
1–24(24 aa)
Chain B
25–126(102 aa)
Chain D
1–24(24 aa)
Chain E
25–126(102 aa)
|
Non-standard monomer:Yes (specific site not provided by mmCIF) Non-standard monomer:Yes (specific site not provided by mmCIF) | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 4.2;5 MG/ML ASPARTATE-ALPHA-DECARBOXYLASE IN 1.5 M AMMONIUM SULFATE, 0.1 M SODIUM CITRATE, PH 3.8
|
Resolution 1.50 Å R-free 0.180 |
| 4AON Conformational dynamics of aspartate alpha-decarboxylase active site revealed by protein-ligand complexes: 1-methyl-L-aspartate complex Deposited 2012-03-29 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 8 PDB declaration: octameric |
Chain A
1–24(24 aa)
Chain B
25–126(102 aa)
Chain D
1–24(24 aa)
Chain E
25–126(102 aa)
|
Non-standard monomer:Yes (specific site not provided by mmCIF) Non-standard monomer:Yes (specific site not provided by mmCIF) | GLU GLUTAMIC ACID × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 4.2;5 MG/ML ASPARTATE-ALPHA-DECARBOXYLASE IN 1.5 M AMMONIUM SULFATE, 0.1 M SODIUM CITRATE, PH 3.8
|
Resolution 1.50 Å R-free 0.162 |
| 4AZD T57V mutant of aspartate decarboxylase Deposited 2012-06-25 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer;Protein × 4 PDB declaration: tetrameric |
Chain A
1–126(126 aa)
Chain B
1–126(126 aa)
|
Mutation:YES Mutation:YES | MLI MALONATE ION × 8 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 4;292 K;2.4 M SODIUM MALONATE, 1.5 M (NH4)2SO4 PH 4, 292 K
|
Resolution 1.62 Å R-free 0.217 |
| 4CRY Direct visualisation of strain-induced protein post-translational modification Deposited 2014-03-02 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 12 PDB declaration: dodecameric |
Chain A
1–24(24 aa)
Chain G
25–126(102 aa)
|
Mutation:YES Non-standard monomer:Yes (specific site not provided by mmCIF) | ACO ACETYL COENZYME *A × 4 MG MAGNESIUM ION × 4 CL CHLORIDE ION × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.4;20% (W/V) POLYETHYLENE GLYCOL (PEG) 3350, 0.1 M BIS-TRIS PROPANE PH 7.4, 0.2 M POTASSIUM THIOCYANATE
|
Resolution 1.61 Å R-free 0.150 |
| 4CRZ Direct visualisation of strain-induced protein prost-translational modification Deposited 2014-03-02 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 8 PDB declaration: octameric |
Chain A
1–126(126 aa)
|
Mutation:YES Non-standard monomer:Yes (specific site not provided by mmCIF) | SCN THIOCYANATE ION × 4 ACO ACETYL COENZYME *A × 4 MG MAGNESIUM ION × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.4;20% (W/V) POLYETHYLENE GLYCOL (PEG) 3350, 0.1 M BIS-TRIS PROPANE PH 7.4, 0.2 M POTASSIUM THIOCYANATE
|
Resolution 1.70 Å R-free 0.175 |
| 4CS0 Direct visualisation of strain-induced protein post-translational modification Deposited 2014-03-02 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 8 PDB declaration: octameric |
Chain A
1–126(126 aa)
|
Mutation:YES Non-standard monomer:Yes (specific site not provided by mmCIF) | SCN THIOCYANATE ION × 4 ACO ACETYL COENZYME *A × 4 MG MAGNESIUM ION × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.4;20% (W/V) POLYETHYLENE GLYCOL (PEG) 3350, 0.1 M BIS-TRIS PROPANE PH 7.4, 0.2 M POTASSIUM THIOCYANATE
|
Resolution 2.10 Å R-free 0.237 |
| 5LS7 Complex of wild type E. coli alpha aspartate decarboxylase with its processing factor PanZ Deposited 2016-08-22 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer;Protein × 12 PDB declaration: dodecameric |
Chain A
1–24(24 aa)
Chain D
25–126(102 aa)
|
Non-standard monomer:Yes (specific site not provided by mmCIF) | GOL GLYCEROL × 8 PEG DI(HYDROXYETHYL)ETHER × 8 ACO ACETYL COENZYME *A × 4 MG MAGNESIUM ION × 4 CO2 CARBON DIOXIDE × 12 SCN THIOCYANATE ION × 8 74C methyl radical × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 6.5;291 K;200 mM KSCN, 100 mM Bis-Tris propane pH 6.5, 20% v/v PEG 3350
|
Resolution 1.16 Å R-free 0.137 |
17 other PDB entries and 18 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | PAND_ECOLI |
| Isoform | — |
| PDB entities | 1, 2 |
| Chains and sequence ranges | Author chain A; PDBConstruct 18–41; UniProt 1–24 Author chain B; PDBConstruct 1–95; UniProt 25–119 |