[English] 日本語
Yorodumi- PDB-2g71: Structure of hPNMT with inhibitor 3-fluoromethyl-7-trifluoropropy... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2g71 | ||||||
---|---|---|---|---|---|---|---|
Title | Structure of hPNMT with inhibitor 3-fluoromethyl-7-trifluoropropyl-THIQ and AdoHcy | ||||||
Components | Phenylethanolamine N-methyltransferase | ||||||
Keywords | TRANSFERASE / methyltransferase | ||||||
Function / homology | Function and homology information phenylethanolamine N-methyltransferase / phenylethanolamine N-methyltransferase activity / epinephrine biosynthetic process / Catecholamine biosynthesis / catecholamine biosynthetic process / methylation / cytosol Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / FOURIER SYNTHESIS / Resolution: 2.2 Å | ||||||
Authors | Tyndall, J.D.A. / Gee, C.L. / Martin, J.L. | ||||||
Citation | Journal: J.Med.Chem. / Year: 2007 Title: Enzyme Adaptation to Inhibitor Binding: A Cryptic Binding Site in Phenylethanolamine N-Methyltransferase Authors: Gee, C.L. / Drinkwater, N. / Tyndall, J.D.A. / Grunewald, G.L. / Wu, Q. / McLeish, M.J. / Martin, J.L. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 2g71.cif.gz | 125.3 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb2g71.ent.gz | 96.6 KB | Display | PDB format |
PDBx/mmJSON format | 2g71.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2g71_validation.pdf.gz | 1.4 MB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 2g71_full_validation.pdf.gz | 1.4 MB | Display | |
Data in XML | 2g71_validation.xml.gz | 25.3 KB | Display | |
Data in CIF | 2g71_validation.cif.gz | 35.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/g7/2g71 ftp://data.pdbj.org/pub/pdb/validation_reports/g7/2g71 | HTTPS FTP |
-Related structure data
Related structure data | 2g70C 2g72C 2obfC 2onyC 2onzC 2opbC 1hnnS S: Starting model for refinement C: citing same article (ref.) |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
2 |
| ||||||||
3 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 31845.967 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: pnmt / Plasmid: PNMT-His / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3)pLysS References: UniProt: P11086, phenylethanolamine N-methyltransferase #2: Chemical | #3: Chemical | #4: Chemical | ChemComp-GOL / | #5: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 3.27 Å3/Da / Density % sol: 62.41 % |
---|---|
Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 5.8 Details: PEG6K, LiCl, cacodylate, pH 5.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ROTATING ANODE / Type: RIGAKU FR-E+ DW / Wavelength: 1.5418 Å |
Detector | Type: RIGAKU RAXIS IV++ / Detector: IMAGE PLATE / Date: Nov 19, 2004 |
Radiation | Monochromator: HiRes2 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→34.96 Å / Num. all: 43780 / Num. obs: 43750 / % possible obs: 99.9 % / Redundancy: 7.52 % / Biso Wilson estimate: 31.1 Å2 / Rmerge(I) obs: 0.065 / Χ2: 0.99 / Net I/σ(I): 14.3 / Scaling rejects: 2486 |
Reflection shell | Resolution: 2.2→2.28 Å / % possible obs: 100 % / Redundancy: 7.53 % / Rmerge(I) obs: 0.42 / Mean I/σ(I) obs: 4.6 / Num. measured all: 32246 / Num. unique obs: 4274 / Χ2: 1.19 / % possible all: 100 |
-Processing
Software |
| ||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: FOURIER SYNTHESIS Starting model: 1HNN Resolution: 2.2→34.96 Å / Isotropic thermal model: Restrained / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
| ||||||||||||||||||||||||||||
Solvent computation | Bsol: 46.633 Å2 | ||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 48.136 Å2
| ||||||||||||||||||||||||||||
Refine analyze |
| ||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.2→34.96 Å
| ||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||
LS refinement shell | Resolution: 2.2→2.34 Å / Rfactor Rfree error: 0.013
| ||||||||||||||||||||||||||||
Xplor file |
|