|
1BJX
HUMAN PROTEIN DISULFIDE ISOMERASE, NMR, 24 STRUCTURES
Deposited 1998-06-29
|
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
136–245(110 aa)
Fragment:B DOMAIN
|
Not recorded
|
No recorded non-water small molecule
|
SOLUTION NMR
NMR measurement conditions
pH 6.5;300 K
|
Resolution not provided
|
|
1MEK
HUMAN PROTEIN DISULFIDE ISOMERASE, NMR, 40 STRUCTURES
Deposited 1996-04-16
|
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
18–137(120 aa)
Fragment:PROLYL 4-HYDROXYLASE BETA SUBUNIT
|
Not recorded
|
No recorded non-water small molecule
|
SOLUTION NMR
mmCIF provides none of the parsed conditions
|
Resolution not provided
|
|
1X5C
The solution structure of the second thioredoxin-like domain of human Protein disulfide-isomerase
Deposited 2005-05-15
|
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
368–475(108 aa)
Fragment:Thioredoxin like domain
|
Not recorded
|
No recorded non-water small molecule
|
SOLUTION NMR
NMR measurement conditions
pH 7;296 K;Ionic strength (raw mmCIF value) 120mM;Pressure ambient
NMR sample composition
1.2mM thioredoxin like domain U-15N,13C; 20mM d-Tris HCl; 100mM NaCl; 1mM d-DTT; 0.02% NaN3; 10% D2O | 90% H2O/10% D2O
|
Resolution not provided
|
|
2BJX
PROTEIN DISULFIDE ISOMERASE
Deposited 1999-01-30
|
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
136–245(110 aa)
Fragment:B DOMAIN
|
Not recorded
|
No recorded non-water small molecule
|
SOLUTION NMR
NMR measurement conditions
pH 6.5;300 K;Pressure 1
|
Resolution not provided
|
|
2K18
Solution structure of bb' domains of human protein disulfide isomerase
Deposited 2008-02-22
|
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
135–357(223 aa)
Fragment:residues 135-357
|
Not recorded
|
No recorded non-water small molecule
|
SOLUTION NMR
NMR measurement conditions
pH 7;303 K;Ionic strength (raw mmCIF value) 0.1;Pressure 1
NMR sample composition
2 mM [U-99% 13C; U-99% 15N] hPDI-bb, 25 mM sodium phosphate, 70 mM sodium chloride, 0.5 mM EDTA, 5 mM DTT, 90% H2O/10% D2O | 90% H2O/10% D2O
NMR sample composition
2 mM hPDI-bb, 25 mM sodium phosphate, 70 mM sodium chloride, 0.5 mM EDTA, 5 mM DTT, 100% D2O | 100% D2O
NMR sample composition
0.5 mM [U-99% 15N] hPDI-bb, 25 mM sodium phosphate, 70 mM sodium chloride, 0.5 mM EDTA, 5 mM DTT, 12 mg/mL Pf1 phages, 90% H2O/10% D2O | 90% H2O/10% D2O
|
Resolution not provided
|
|
3BJ5
Alternative conformations of the x region of human protein disulphide-isomerase modulate exposure of the substrate binding b' domain
Deposited 2007-12-03
|
Different construct
Different mutation/modification
Different oligomeric state
Different experimental conditions
Different structure-quality metrics
|
Assembly 1
Protein monomer
Monomer;Protein × 1
PDB declaration: monomeric
|
Chain A
230–368(139 aa)
Fragment:;b'x domain, UNPR residues 230-368
;
|
Mutation:I272A
|
SO4 SULFATE ION × 1
|
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 8.5;295.15 K;2.95M Ammonium sulfate, 0.2M NaCl, 0.1M Tris-HCl pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 295.15K
|
Resolution 2.20 Å
R-free 0.255
|
|
3UEM
Crystal structure of human PDI bb'a' domains
Deposited 2011-10-30
|
Different construct
Different oligomeric state
Different ligand/ion
Different experimental conditions
Different structure-quality metrics
|
Assembly 1
Protein monomer
Monomer;Protein × 1
PDB declaration: monomeric
|
Chain A
137–479(343 aa)
Fragment:;bb'a' domains
;
|
Not recorded
|
D1D (4S,5S)-1,2-DITHIANE-4,5-DIOL × 1
|
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 8.5;289 K;25%(w/v) PEG3350, 0.1M Tris-HCl, 0.2M ammonium acetate, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K
|
Resolution 2.29 Å
R-free 0.280
|
|
4EKZ
Crystal structure of reduced hPDI (abb'xa')
Deposited 2012-04-10
|
Different construct
Different oligomeric state
Different ligand/ion
Different experimental conditions
Different structure-quality metrics
|
Assembly 1
Protein monomer
Monomer;Protein × 1
PDB declaration: monomeric
|
Chain A
18–479(462 aa)
Fragment:reduced full-length hPDI, UNP residues 18-479
|
Not recorded
|
No recorded non-water small molecule
|
X-RAY DIFFRACTION
X-ray crystallization conditions
EVAPORATION;pH 9.8;294 K;25% PEG 3350, 0.1M Bis-Tris, 0.2M ammonium acetate, pH 9.8, EVAPORATION, temperature 294K
|
Resolution 2.51 Å
R-free 0.250
|
|
4EL1
Crystal structure of oxidized hPDI (abb'xa')
Deposited 2012-04-10
|
Different construct
Different oligomeric state
Different ligand/ion
Different experimental conditions
Different structure-quality metrics
|
Assembly 1
Protein monomer
Monomer;Protein × 1
PDB declaration: monomeric
|
Chain A
18–479(462 aa)
Fragment:oxidized full-length hPDI, UNP residues 18-479
|
Not recorded
|
No recorded non-water small molecule
|
X-RAY DIFFRACTION
X-ray crystallization conditions
EVAPORATION;pH 9.8;294 K;25% PEG 3350, 0.1M Bis-Tris, 0.2M ammonium acetate, pH 9.8, EVAPORATION, temperature 294K
|
Resolution 2.88 Å
R-free 0.281
|
|
4EL1
Crystal structure of oxidized hPDI (abb'xa')
Deposited 2012-04-10
|
Different construct
Different oligomeric state
Different ligand/ion
Different experimental conditions
Different structure-quality metrics
|
Assembly 2
Protein monomer
Monomer;Protein × 1
PDB declaration: monomeric
|
Chain B
18–479(462 aa)
Fragment:oxidized full-length hPDI, UNP residues 18-479
|
Not recorded
|
No recorded non-water small molecule
|
X-RAY DIFFRACTION
X-ray crystallization conditions
EVAPORATION;pH 9.8;294 K;25% PEG 3350, 0.1M Bis-Tris, 0.2M ammonium acetate, pH 9.8, EVAPORATION, temperature 294K
|
Resolution 2.88 Å
R-free 0.281
|
|
4JU5
Crystal structure of the dimeric form of the bb' domains of human protein disulfide isomerase
Deposited 2013-03-24
|
Different construct
Different mutation/modification
Different oligomeric state
Different ligand/ion
Different experimental conditions
Different structure-quality metrics
|
Assembly 1
Protein homooligomer
Homooligomer;Protein × 2
PDB declaration: dimeric
|
Chain A
135–367(233 aa)
Fragment:;bb' domain
;
Chain B
135–367(233 aa)
Fragment:;bb' domain
;
|
Not recorded
|
No recorded non-water small molecule
|
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP;pH 4;295 K;25% (w/v) polyethylene glycol 1500, 25 mM sodium malonate, 37.5 mM imidazole, 37.5 mM boric acid, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
|
Resolution 2.28 Å
R-free 0.290
|
|
6I7S
Microsomal triglyceride transfer protein
Deposited 2018-11-17
|
Different ligand/ion
Different experimental conditions
Different structure-quality metrics
|
Assembly 1
Protein heterocomplex
Heteromer;Protein × 2
PDB declaration: dimeric
|
Chain A
18–508(491 aa)
|
Not recorded
|
CA CALCIUM ION × 1
EDO 1,2-ETHANEDIOL × 11
PGE TRIETHYLENE GLYCOL × 1
SO4 SULFATE ION × 7
PEG DI(HYDROXYETHYL)ETHER × 2
PE5 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL × 1
TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1
|
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP;pH 7.5;277 K;0.1 M Tris pH 8.25, 0.2 M Li2SO4, 32% v/v PEG 400, 2% Polypropylene glycol P425
|
Resolution 2.50 Å
R-free 0.257
|
|
6I7S
Microsomal triglyceride transfer protein
Deposited 2018-11-17
|
Different ligand/ion
Different experimental conditions
Different structure-quality metrics
|
Assembly 2
Protein heterocomplex
Heteromer;Protein × 2
PDB declaration: dimeric
|
Chain B
18–508(491 aa)
|
Not recorded
|
CA CALCIUM ION × 1
EDO 1,2-ETHANEDIOL × 8
PGE TRIETHYLENE GLYCOL × 5
SO4 SULFATE ION × 4
PEG DI(HYDROXYETHYL)ETHER × 7
PE5 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL × 1
PE4 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL × 1
|
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP;pH 7.5;277 K;0.1 M Tris pH 8.25, 0.2 M Li2SO4, 32% v/v PEG 400, 2% Polypropylene glycol P425
|
Resolution 2.50 Å
R-free 0.257
|
|
8EOJ
Microsomal triglyceride transfer protein
Deposited 2022-10-03
|
Different construct
Different ligand/ion
Different experimental method
Different experimental conditions
Different structure-quality metrics
|
Assembly 1
Protein heterocomplex
Heteromer;Protein × 2
PDB declaration: dimeric
|
Chain A
1–508(508 aa)
|
Not recorded
|
No recorded non-water small molecule
|
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.07 Å
|
|
8GDY
Crystal structure of the human PDI first domain with 9 mutations
Deposited 2023-03-06
|
Different construct
Different mutation/modification
Different oligomeric state
Different ligand/ion
Different experimental conditions
Different structure-quality metrics
|
Assembly 1
Protein monomer
Monomer;Protein × 1
PDB declaration: monomeric
|
Chain A
18–137(120 aa)
|
Mutation:K31R, K42R, K57R, K65R, K69R, K71R, K114R, K130R, K131R
|
SCN THIOCYANATE ION × 1
EDO 1,2-ETHANEDIOL × 1
|
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH;pH 6;277 K;0.1 M potassium thiocyanate, 0.1 M MES, and 24% (w/v) PEG 20k
|
Resolution 2.05 Å
R-free 0.239
|
|
8GDY
Crystal structure of the human PDI first domain with 9 mutations
Deposited 2023-03-06
|
Different construct
Different mutation/modification
Different oligomeric state
Different ligand/ion
Different experimental conditions
Different structure-quality metrics
|
Assembly 2
Protein monomer
Monomer;Protein × 1
PDB declaration: monomeric
|
Chain B
18–137(120 aa)
|
Mutation:K31R, K42R, K57R, K65R, K69R, K71R, K114R, K130R, K131R
|
SCN THIOCYANATE ION × 1
|
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH;pH 6;277 K;0.1 M potassium thiocyanate, 0.1 M MES, and 24% (w/v) PEG 20k
|
Resolution 2.05 Å
R-free 0.239
|