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- PDB-2z3t: Crystal Structure of Substrate Free Cytochrome P450 StaP (CYP245A1) -
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Open data
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Basic information
Entry | Database: PDB / ID: 2z3t | ||||||
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Title | Crystal Structure of Substrate Free Cytochrome P450 StaP (CYP245A1) | ||||||
![]() | Cytochrome P450 | ||||||
![]() | OXIDOREDUCTASE / cytochrome P450 / monoxygenase / oxydoreductase / heme-enzyme | ||||||
Function / homology | ![]() cholest-4-en-3-one 26-monooxygenase activity / steroid hydroxylase activity / cholesterol catabolic process / iron ion binding / heme binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Makino, M. / Sugimoto, H. / Shiro, Y. / Asamizu, S. / Onaka, H. / Nagano, S. | ||||||
![]() | ![]() Title: Crystal structures and catalytic mechanism of cytochrome P450 StaP that produces the indolocarbazole skeleton Authors: Makino, M. / Sugimoto, H. / Shiro, Y. / Asamizu, S. / Onaka, H. / Nagano, S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 318.2 KB | Display | ![]() |
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PDB format | ![]() | 259 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.9 MB | Display | ![]() |
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Full document | ![]() | 2 MB | Display | |
Data in XML | ![]() | 66.9 KB | Display | |
Data in CIF | ![]() | 89.7 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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3 | ![]()
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4 | ![]()
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Unit cell |
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Details | The biological assembly is a monomer. |
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Components
#1: Protein | Mass: 47262.262 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-HEM / #3: Chemical | ChemComp-IMD / #4: Chemical | ChemComp-EDO / #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.58 Å3/Da / Density % sol: 52.41 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion / pH: 8 Details: 22% PEG 3350, 50mM potassium fluoride, 100mM imidazole, pH 8.0, VAPOR DIFFUSION, temperature 293K |
-Data collection
Diffraction |
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Diffraction source |
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Detector |
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Radiation |
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Radiation wavelength |
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Reflection twin | Type: hemihedral / Operator: -h,-k,h+l / Fraction: 0.453 | ||||||||||||||||||
Reflection | Resolution: 1.9→20 Å / Num. obs: 138934 / % possible obs: 91.4 % / Observed criterion σ(I): 0 / Redundancy: 3.3 % / Biso Wilson estimate: 31.42 Å2 / Rsym value: 0.032 / Net I/σ(I): 20.66 | ||||||||||||||||||
Reflection shell | Resolution: 1.9→1.97 Å / Redundancy: 3.2 % / Mean I/σ(I) obs: 3.34 / Num. unique all: 10180 / Rsym value: 0.416 / % possible all: 67.1 |
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Processing
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Refinement | Method to determine structure: ![]() Details: Used twin_lsq target. Twin fraction 0.453. Twin low -h, -k, h+l
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Solvent computation | Bsol: 59.704 Å2 | ||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 43.856 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.9→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.9→1.97 Å
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Xplor file |
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