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- PDB-1ctt: TRANSITION-STATE SELECTIVITY FOR A SINGLE OH GROUP DURING CATALYS... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1ctt | ||||||
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Title | TRANSITION-STATE SELECTIVITY FOR A SINGLE OH GROUP DURING CATALYSIS BY CYTIDINE DEAMINASE | ||||||
![]() | CYTIDINE DEAMINASE | ||||||
![]() | HYDROLASE | ||||||
Function / homology | ![]() pyrimidine nucleoside binding / deoxycytidine catabolic process / cytidine deaminase / cytidine deamination / : / cytidine deaminase activity / nucleobase-containing small molecule interconversion / protein homodimerization activity / zinc ion binding / identical protein binding / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() | ||||||
![]() | Xiang, S. / Short, S.A. / Wolfenden, R. / Carter, C.W. | ||||||
![]() | ![]() Title: Transition-state selectivity for a single hydroxyl group during catalysis by cytidine deaminase. Authors: Xiang, S. / Short, S.A. / Wolfenden, R. / Carter Jr., C.W. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 69.7 KB | Display | ![]() |
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PDB format | ![]() | 51.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 436.4 KB | Display | ![]() |
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Full document | ![]() | 448.4 KB | Display | |
Data in XML | ![]() | 14.7 KB | Display | |
Data in CIF | ![]() | 19.6 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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Unit cell |
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Details | SYMMETRY THE CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS PRESENTED BELOW GENERATE THE SUBUNITS OF THE POLYMERIC MOLECULE. APPLIED TO RESIDUES: 1 .. 700 SYMMETRY1 1 0.000000 1.000000 0.000000 0.00000 SYMMETRY2 1 1.000000 0.000000 0.000000 0.00000 SYMMETRY3 1 0.000000 0.000000 -1.000000 0.00000 |
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Components
#1: Protein | Mass: 31569.785 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() |
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#2: Chemical | ChemComp-ZN / |
#3: Chemical | ChemComp-DHZ / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 5.19 Å3/Da / Density % sol: 76.29 % | ||||||||||||||||||||
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Crystal | *PLUS Density % sol: 65 % | ||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ / pH: 6.2 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Wavelength: 1.5418 |
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Detector | Type: RIGAKU RAXIS / Detector: IMAGE PLATE |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Num. obs: 34000 / % possible obs: 88 % / Observed criterion σ(I): 1 / Redundancy: 3.5 % |
Reflection | *PLUS Highest resolution: 2.1 Å / Num. measured all: 118087 / Rmerge(I) obs: 0.0781 |
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Processing
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Refinement | Resolution: 2.2→20 Å / σ(F): 2 /
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Displacement parameters | Biso mean: 33.5 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.25 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.2→20 Å
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Refine LS restraints |
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Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_d / Dev ideal: 2.4 |