Current Protein Identity：P20449
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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 |
|---|---|---|---|---|---|---|---|
| 2KBE solution structure of amino-terminal domain of Dbp5p Deposited 2008-11-27 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
71–296（226 aa）
Fragment：amino-terminal domain
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 6.7；298 K；Ionic strength (raw mmCIF value) 0.1；Pressure ambient
NMR sample composition
20 mM MES, 100 mM potassium acetate, 0.6 mM [U-13C; U-15N] Dbp5p, 90% H2O/10% D2O | 90% H2O/10% D2O
|
Resolution not provided |
| 2KBF solution structure of carboxyl-terminal domain of Dbp5p Deposited 2008-11-28 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
296–482（187 aa）
Fragment：residues 296-482
|
Not recorded | No recorded non-water small molecule | SOLUTION NMR |
NMR measurement conditions
pH 6.7；298 K；Ionic strength (raw mmCIF value) 0.1；Pressure ambient
NMR sample composition
0.7 mM [U-13C; U-15N] protein, 20 mM MES, 100 mM potassium acetate, 90% H2O/10% D2O | 90% H2O/10% D2O
|
Resolution not provided |
| 3GFP Structure of the C-terminal domain of the DEAD-box protein Dbp5 Deposited 2009-02-27 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
Chain A
296–482（187 aa）
Fragment：Helicase C-terminal domain
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | No recorded non-water small molecule | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；292 K；2M Na/K HPO4, 100mM Na cacodylate pH 6.5, 8% Glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 292K
|
Resolution 1.80 Å R-free 0.230 |
| 3PEU S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 H337R and IP6 Deposited 2010-10-27 | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain A
297–482（186 aa）
Fragment：Dbp5-CTD
|
Mutation：L327V,H337R Non-standard monomer：Yes (specific site not provided by mmCIF) | SO4 SULFATE ION × 1 GOL GLYCEROL × 3 IHP INOSITOL HEXAKISPHOSPHATE × 1 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 8；291 K；30% PEG 3350, 100 mM HEPES pH 8.0, 50 mM NaOAc, 200mM LiS04, 10 mM HEPES pH 7.5, 100mM NaCl, 1mM DTT, 0.5 mM IP6, 5% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 2.60 Å R-free 0.213 |
| 3PEU S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 H337R and IP6 Deposited 2010-10-27 | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain A
297–482（186 aa）
Fragment：Dbp5-CTD
|
Mutation：L327V,H337R Non-standard monomer：Yes (specific site not provided by mmCIF) | SO4 SULFATE ION × 1 GOL GLYCEROL × 3 IHP INOSITOL HEXAKISPHOSPHATE × 1 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 8；291 K；30% PEG 3350, 100 mM HEPES pH 8.0, 50 mM NaOAc, 200mM LiS04, 10 mM HEPES pH 7.5, 100mM NaCl, 1mM DTT, 0.5 mM IP6, 5% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 2.60 Å R-free 0.213 |
| 3PEV S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6 Deposited 2010-10-27 | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain A
297–482（186 aa）
Fragment：Dbp5-CTD
|
Mutation：L327V Non-standard monomer：Yes (specific site not provided by mmCIF) | SO4 SULFATE ION × 1 GOL GLYCEROL × 3 IHP INOSITOL HEXAKISPHOSPHATE × 1 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.8；291 K；30% PEG 3350, 100 mM HEPES pH 7.8, 200mM LiS04, 10mM HEPES pH 7.5, 150mM NaCl, 1mM DTT, 0.5 mM IP6, 5% glycerol
, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 2.50 Å R-free 0.238 |
| 3PEV S. cerevisiae Dbp5 L327V C-terminal domain bound to Gle1 and IP6 Deposited 2010-10-27 | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain A
297–482（186 aa）
Fragment：Dbp5-CTD
|
Mutation：L327V Non-standard monomer：Yes (specific site not provided by mmCIF) | SO4 SULFATE ION × 1 GOL GLYCEROL × 3 IHP INOSITOL HEXAKISPHOSPHATE × 1 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.8；291 K；30% PEG 3350, 100 mM HEPES pH 7.8, 200mM LiS04, 10mM HEPES pH 7.5, 150mM NaCl, 1mM DTT, 0.5 mM IP6, 5% glycerol
, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 2.50 Å R-free 0.238 |
| 3PEW S. cerevisiae Dbp5 L327V bound to RNA and ADP BeF3 Deposited 2010-10-27 | Assembly 1 Protein–RNA Monomer；Protein × 1 PDB declaration: dimeric（2） Consistent with all polymers |
Chain A
91–482（392 aa）
|
Mutation：L327V | ADP ADENOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 3 BEF BERYLLIUM TRIFLUORIDE ION × 1 NO3 NITRATE ION × 5 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；291 K；20% PEG 3350, 200 mM MgNO3, 10 mM HEPES pH 7.5, 100 mM NaCl, 1mM DTT, 0.5 mM IP6, 5 mM MgCl2, 1 mM ADP, 3 mM BeCl2, 15 mM NaF, 5% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 1.50 Å R-free 0.189 |
| 3PEY S. cerevisiae Dbp5 bound to RNA and ADP BeF3 Deposited 2010-10-27 | Assembly 1 Protein–RNA Monomer；Protein × 1 PDB declaration: dimeric（2） Consistent with all polymers |
Chain A
91–482（392 aa）
|
Not recorded | ADP ADENOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 3 BEF BERYLLIUM TRIFLUORIDE ION × 1 NO3 NITRATE ION × 4 GOL GLYCEROL × 1 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；291 K；20% PEG 3350, 200 mM MgNO3, 10 mM HEPES pH 7.5, 100 mM NaCl, 1mM DTT, 0.5 mM IP6, 5 mM MgCl2, 1 mM ADP, 3 mM BeCl2, 15 mM NaF, 5% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 1.40 Å R-free 0.179 |
| 3RRM S. cerevisiae dbp5 l327v bound to nup159, gle1 h337r, ip6 and adp Deposited 2011-04-29 | Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
Chain A
91–482（392 aa）
Fragment：unp residues 91-482
|
Mutation：L327V | ADP ADENOSINE-5'-DIPHOSPHATE × 1 IHP INOSITOL HEXAKISPHOSPHATE × 1 MG MAGNESIUM ION × 1 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；291 K；20% PEG 3350, 200 mM KOAc, 20 mM sarcosine, 10 mM HEPES, 100 mM NaCl, 1 mM DTT, 0.5 mM IP6, 10 mM MgCl2, 1 mM ADP, 5% glycerol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 2.90 Å R-free 0.261 |
| 3RRN S. cerevisiae dbp5 l327v bound to gle1 h337r and ip6 Deposited 2011-04-29 | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
Chain A
91–482（392 aa）
Fragment：unp residues 91-482
|
Mutation：L327V | ADP ADENOSINE-5'-DIPHOSPHATE × 1 IHP INOSITOL HEXAKISPHOSPHATE × 3 | X-RAY DIFFRACTION |
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；291 K；30% PEG 300, 100mM MES, 2% MPD, 10 mM HEPES, 100 mM NaCl, 1 mM DTT, 0.5 mM IP6, 0.5 mM ADP, 5% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 291K, pH 6.5
|
Resolution 4.00 Å R-free 0.239 |