+Open data
-Basic information
Entry | Database: PDB / ID: 2phm | ||||||
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Title | STRUCTURE OF PHENYLALANINE HYDROXYLASE DEPHOSPHORYLATED | ||||||
Components | PROTEIN (PHENYLALANINE-4-HYDROXYLASE) | ||||||
Keywords | OXIDOREDUCTASE / PHENYLALANINE HYDROXYLASE / AROMATIC AMINO ACID HYDROXYLASE / PHOSPHORYLATION / INTRASTERIC REGULATION / ALLOSTERIC REGULATION | ||||||
Function / homology | Function and homology information tyrosine biosynthetic process, by oxidation of phenylalanine / Phenylalanine metabolism / L-phenylalanine metabolic process / phenylalanine 4-monooxygenase / phenylalanine 4-monooxygenase activity / tyrosine biosynthetic process / L-phenylalanine catabolic process / amino acid binding / iron ion binding / identical protein binding Similarity search - Function | ||||||
Biological species | Rattus norvegicus (Norway rat) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MIRAS / Resolution: 2.6 Å | ||||||
Authors | Kobe, B. / Jennings, I.G. / House, C.M. / Michell, B.J. / Cotton, R.G. / Kemp, B.E. | ||||||
Citation | Journal: Nat.Struct.Biol. / Year: 1999 Title: Structural basis of autoregulation of phenylalanine hydroxylase. Authors: Kobe, B. / Jennings, I.G. / House, C.M. / Michell, B.J. / Goodwill, K.E. / Santarsiero, B.D. / Stevens, R.C. / Cotton, R.G. / Kemp, B.E. #1: Journal: Protein Sci. / Year: 1997 Title: Regulation and Crystallization of Phosphorylated and Dephosphorylated Forms of Truncated Dimeric Phenylalanine Hydroxylase Authors: Kobe, B. / Jennings, I.G. / House, C.M. / Feil, S.C. / Michell, B.J. / Tiganis, T. / Parker, M.W. / Cotton, R.G.H. / Kemp, B.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2phm.cif.gz | 95.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2phm.ent.gz | 72.7 KB | Display | PDB format |
PDBx/mmJSON format | 2phm.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ph/2phm ftp://data.pdbj.org/pub/pdb/validation_reports/ph/2phm | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 49329.543 Da / Num. of mol.: 1 / Fragment: PHEOH-24 (RESIDUES 1-429) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Rattus norvegicus (Norway rat) / Cellular location: CYTOPLASM / Cell line (production host): SF9 / Production host: Spodoptera frugiperda (fall armyworm) / References: UniProt: P04176, phenylalanine 4-monooxygenase |
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#2: Chemical | ChemComp-FE / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.42 Å3/Da / Density % sol: 48.7 % | ||||||||||||||||||||||||||||||
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Crystal grow | pH: 8 Details: 23-25% PEG 4000 100 MM TRIS-HCL PH 8.0 0-5 MM GLUTATHIONE | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 22 ℃ / pH: 6 / Method: vapor diffusion, hanging dropDetails: drop consists of equal volume of protein and reservoir solutions | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Photon Factory / Beamline: BL-6A / Wavelength: 1 |
Detector | Type: WEISSENBERG / Detector: DIFFRACTOMETER / Date: May 1, 1996 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.6→99 Å / Num. obs: 15307 / % possible obs: 95 % / Redundancy: 6.9 % / Biso Wilson estimate: 18.7 Å2 / Rmerge(I) obs: 0.101 / Net I/σ(I): 10.9 |
Reflection shell | Resolution: 2.6→2.69 Å / Rmerge(I) obs: 0.45 / Mean I/σ(I) obs: 1.9 / % possible all: 95 |
Reflection | *PLUS Num. measured all: 105530 |
Reflection shell | *PLUS % possible obs: 95 % |
-Processing
Software |
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Refinement | Method to determine structure: MIRAS Starting model: 1-H Resolution: 2.6→99 Å / Rfactor Rfree error: 0.009 / Data cutoff high absF: 1000000 / Data cutoff low absF: 0.001 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / Details: BULK SOLVENT MODEL USED
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Displacement parameters | Biso mean: 25.6 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.6→99 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.6→2.69 Å / Rfactor Rfree error: 0.033 / Total num. of bins used: 10
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Xplor file |
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Software | *PLUS Name: X-PLOR / Version: 3.851 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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