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Yorodumi- PDB-1gar: TOWARDS STRUCTURE-BASED DRUG DESIGN: CRYSTAL STRUCTURE OF A MULTI... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1gar | ||||||
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Title | TOWARDS STRUCTURE-BASED DRUG DESIGN: CRYSTAL STRUCTURE OF A MULTISUBSTRATE ADDUCT COMPLEX OF GLYCINAMIDE RIBONUCLEOTIDE TRANSFORMYLASE AT 1.96 ANGSTROMS RESOLUTION | ||||||
Components | GLYCINAMIDE RIBONUCLEOTIDE TRANSFORMYLASE | ||||||
Keywords | TRANSFERASE (FORMYL) | ||||||
Function / homology | Function and homology information phosphoribosylglycinamide formyltransferase 1 / phosphoribosylglycinamide formyltransferase activity / 'de novo' IMP biosynthetic process / DNA damage response / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.96 Å | ||||||
Authors | Wilson, I.A. / Klein, C. / Chen, P. / Arevalo, J.H. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1995 Title: Towards structure-based drug design: crystal structure of a multisubstrate adduct complex of glycinamide ribonucleotide transformylase at 1.96 A resolution. Authors: Klein, C. / Chen, P. / Arevalo, J.H. / Stura, E.A. / Marolewski, A. / Warren, M.S. / Benkovic, S.J. / Wilson, I.A. #1: Journal: J.Mol.Biol. / Year: 1992 Title: Crystal Structure of Glycinamide Ribonucleotide Transformylase from Escherichia Coli at 3.0 Angstroms Resolution. A Target Enzyme for Chemotherapy Authors: Chen, P. / Schulze-Gahmen, U. / Stura, E.A. / Inglese, J. / Johnson, D.L. / Marolewski, A. / Benkovic, S.J. / Wilson, I.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1gar.cif.gz | 100.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1gar.ent.gz | 77.7 KB | Display | PDB format |
PDBx/mmJSON format | 1gar.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1gar_validation.pdf.gz | 629 KB | Display | wwPDB validaton report |
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Full document | 1gar_full_validation.pdf.gz | 650.7 KB | Display | |
Data in XML | 1gar_validation.xml.gz | 13.2 KB | Display | |
Data in CIF | 1gar_validation.cif.gz | 19.7 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ga/1gar ftp://data.pdbj.org/pub/pdb/validation_reports/ga/1gar | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 23266.254 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) References: UniProt: P08179, phosphoribosylglycinamide formyltransferase 1 #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.11 Å3/Da / Density % sol: 41.7 % | ||||||||||||||||||||||||||||||
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Crystal | *PLUS Density % sol: 42 % | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 22.5 ℃ / pH: 7.5 / Method: vapor diffusion, sitting drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Wavelength: 1.5418 |
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Detector | Type: MULTIWIRE AREA DETECTOR / Detector: AREA DETECTOR / Date: 1991 |
Radiation | Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Num. obs: 22588 / % possible obs: 84 % / Observed criterion σ(I): 0 / Redundancy: 4 % / Rmerge(I) obs: 0.056 |
Reflection | *PLUS Highest resolution: 1.96 Å / Num. measured all: 47736 / Rmerge(I) obs: 0.054 |
-Processing
Software |
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Refinement | Resolution: 1.96→6 Å / σ(F): 2
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Displacement parameters | Biso mean: 36.1 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.3 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.96→6 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Num. reflection all: 22588 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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