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Open data
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Basic information
Entry | Database: PDB / ID: 1bx4 | ||||||
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Title | STRUCTURE OF HUMAN ADENOSINE KINASE AT 1.50 ANGSTROMS | ||||||
![]() | PROTEIN (ADENOSINE KINASE) | ||||||
![]() | TRANSFERASE / HUMAN ADENOSINE KINASE | ||||||
Function / homology | ![]() dATP biosynthetic process / adenosine kinase / adenosine kinase activity / dAMP salvage / ribonucleoside monophosphate biosynthetic process / deoxyadenosine kinase activity / Ribavirin ADME / GMP salvage / Purine salvage / AMP salvage ...dATP biosynthetic process / adenosine kinase / adenosine kinase activity / dAMP salvage / ribonucleoside monophosphate biosynthetic process / deoxyadenosine kinase activity / Ribavirin ADME / GMP salvage / Purine salvage / AMP salvage / purine ribonucleoside salvage / purine nucleobase metabolic process / RNA binding / nucleoplasm / ATP binding / nucleus / metal ion binding / plasma membrane / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Mathews, I.I. / Erion, M.D. / Ealick, S.E. | ||||||
![]() | ![]() Title: Structure of human adenosine kinase at 1.5 A resolution. Authors: Mathews, I.I. / Erion, M.D. / Ealick, S.E. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 88.8 KB | Display | ![]() |
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PDB format | ![]() | 66.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 38755.219 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Description: NATIVE PROTEIN WAS EXPRESSED IN BL21[DE3] CELLS SELENO METHIONINE PROTEIN IN B834[DE3] CELLS Production host: ![]() ![]() | ||||||
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#2: Chemical | #3: Chemical | #4: Chemical | #5: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.3 Å3/Da / Density % sol: 47 % / Description: MLPHARE WAS USED FOR THE REFINEMENT | |||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 7.5 / Details: 20%PEG 4K, 0.16M MGCL2, 0.1M TRIS, PH 7.5 | |||||||||||||||||||||||||||||||||||
Crystal | *PLUS | |||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||||||||||||
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: ADSC QUANTUM 4 / Detector: CCD / Date: Aug 15, 1997 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.929 Å / Relative weight: 1 |
Reflection | Resolution: 1.5→20 Å / Num. obs: 57595 / % possible obs: 98.3 % / Redundancy: 3.7 % / Rmerge(I) obs: 0.048 / Rsym value: 0.048 / Net I/σ(I): 6.3 |
Reflection shell | Resolution: 1.5→1.58 Å / Redundancy: 2.9 % / Rmerge(I) obs: 0.185 / Mean I/σ(I) obs: 3.7 / Rsym value: 0.185 / % possible all: 91.4 |
Reflection | *PLUS Num. measured all: 259153 |
Reflection shell | *PLUS % possible obs: 91.4 % |
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Processing
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Refinement | Method to determine structure: ![]() Details: TOPOLOGY AND PARAMETER FILES FOR ADENOSINE WERE GENERATED.
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Displacement parameters | Biso mean: 16.9 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.5→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.5→1.57 Å / Total num. of bins used: 8
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Xplor file | Serial no: 1 / Param file: PARHCSDX.PRO / Topol file: TOPHCSDX.PRO | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS σ(F): 2 / % reflection Rfree: 5 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 16.9 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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LS refinement shell | *PLUS Rfactor Rfree: 0.267 / % reflection Rfree: 5 % / Rfactor Rwork: 0.247 |