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- PDB-1l7d: Crystal Structure of R. rubrum Transhydrogenase Domain I without ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1l7d | ||||||
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Title | Crystal Structure of R. rubrum Transhydrogenase Domain I without Bound NAD(H) | ||||||
![]() | nicotinamide nucleotide Transhydrogenase, subunit alpha 1 | ||||||
![]() | OXIDOREDUCTASE / Transhydrogenase domain I | ||||||
Function / homology | ![]() NAD(P)+ transhydrogenase (Si-specific) activity / proton-translocating NAD(P)+ transhydrogenase activity / proton-translocating NAD(P)+ transhydrogenase / NADPH regeneration / NADH binding / NAD+ binding / NAD binding / NADP binding / protein dimerization activity / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Prasad, G.S. / Wahlberg, M. / Sridhar, V. / Yamaguchi, M. / Hatefi, Y. / Stout, C.D. | ||||||
![]() | ![]() Title: Crystal Structures of Transhydrogenase Domain I with and without Bound NADH Authors: Prasad, G.S. / Wahlberg, M. / Sridhar, V. / Yamaguchi, M. / Hatefi, Y. / Stout, C.D. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 289.1 KB | Display | ![]() |
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PDB format | ![]() | 228.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 395 KB | Display | ![]() |
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Full document | ![]() | 424.4 KB | Display | |
Data in XML | ![]() | 30.6 KB | Display | |
Data in CIF | ![]() | 51 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 40324.785 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() References: UniProt: Q60164, UniProt: Q2RSB2*PLUS, EC: 1.6.1.1 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.17 Å3/Da / Density % sol: 43.44 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / Method: vapor diffusion / pH: 7.5 Details: mPEG 2K, Tris-HCl, Magnesium acetate, pH 7.5, VAPOR DIFFUSION, temperature 277.0K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ / pH: 8 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: May 29, 2000 |
Radiation | Monochromator: Curved crystal (silicon 111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.08 Å / Relative weight: 1 |
Reflection | Resolution: 1.81→50 Å / Num. all: 209505 / Num. obs: 113060 / % possible obs: 91.2 % / Observed criterion σ(F): 1.9 / Observed criterion σ(I): 0 / Redundancy: 1.9 % / Biso Wilson estimate: 23.2 Å2 / Rsym value: 0.076 / Net I/σ(I): 8.5 |
Reflection shell | Resolution: 1.81→1.86 Å / Redundancy: 1.5 % / Mean I/σ(I) obs: 1.9 / Rsym value: 0.433 / % possible all: 66.6 |
Reflection | *PLUS Num. measured all: 209505 / Rmerge(I) obs: 0.076 |
Reflection shell | *PLUS Rmerge(I) obs: 0.448 / Mean I/σ(I) obs: 1.5 |
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Processing
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Refinement | Method to determine structure: ![]()
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Refinement step | Cycle: LAST / Resolution: 1.81→50 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 1.82 Å / Rfactor Rwork: 0.22 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS |