[English] 日本語
![](img/lk-miru.gif)
- PDB-1rbz: Human GAR Tfase complex structure with polyglutamated 10-(trifluo... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 1rbz | ||||||
---|---|---|---|---|---|---|---|
Title | Human GAR Tfase complex structure with polyglutamated 10-(trifluoroacetyl)-5,10-dideazaacyclic-5,6,7,8-tetrahydrofolic acid | ||||||
![]() | PHOSPHORIBOSYLGLYCINAMIDE FORMYLTRANSFERASE | ||||||
![]() | TRANSFERASE / PROTEIN-COFACTOR ANALOGUE COMPLEX | ||||||
Function / homology | ![]() phosphoribosylformylglycinamidine cyclo-ligase / phosphoribosylformylglycinamidine cyclo-ligase activity / adenine biosynthetic process / phosphoribosylamine-glycine ligase / phosphoribosylamine-glycine ligase activity / phosphoribosylglycinamide formyltransferase 1 / purine ribonucleoside monophosphate biosynthetic process / phosphoribosylglycinamide formyltransferase activity / 'de novo' XMP biosynthetic process / brainstem development ...phosphoribosylformylglycinamidine cyclo-ligase / phosphoribosylformylglycinamidine cyclo-ligase activity / adenine biosynthetic process / phosphoribosylamine-glycine ligase / phosphoribosylamine-glycine ligase activity / phosphoribosylglycinamide formyltransferase 1 / purine ribonucleoside monophosphate biosynthetic process / phosphoribosylglycinamide formyltransferase activity / 'de novo' XMP biosynthetic process / brainstem development / Purine ribonucleoside monophosphate biosynthesis / glycine metabolic process / 'de novo' AMP biosynthetic process / GMP biosynthetic process / purine nucleotide biosynthetic process / 'de novo' IMP biosynthetic process / : / tetrahydrofolate biosynthetic process / : / cerebellum development / cerebral cortex development / extracellular exosome / ATP binding / metal ion binding / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Zhang, Y. / Desharnais, J. / Boger, D.L. / Wilson, I.A. | ||||||
![]() | ![]() Title: Human GAR Tfase complex structure Authors: Zhang, Y. / Desharnais, J. / Boger, D.L. / Wilson, I.A. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 93 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 71.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
---|
-Related structure data
Related structure data | ![]() 1rbmC ![]() 1rbyC ![]() 1rc0C ![]() 1rc1C ![]() 1njsS S: Starting model for refinement C: citing same article ( |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
1 | ![]()
| ||||||||||
2 | ![]()
| ||||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 22678.941 Da / Num. of mol.: 2 / Fragment: (residues 808-1010) Source method: isolated from a genetically manipulated source Details: part of Trifunctional purine biosynthetic protein adenosine-3 Source: (gene. exp.) ![]() ![]() ![]() References: UniProt: P22102, phosphoribosylglycinamide formyltransferase 1 #2: Chemical | #3: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 4.71 Å3/Da / Density % sol: 73.7 % |
---|---|
Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop / pH: 4 Details: PEG 1500, Sodium Acetate, pH 4., VAPOR DIFFUSION, SITTING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 9 / Detector: CCD / Date: Jun 14, 2002 / Details: mirrors |
Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.992 Å / Relative weight: 1 |
Reflection | Resolution: 2.06→47 Å / Num. all: 53508 / Num. obs: 53508 / % possible obs: 99.3 % / Observed criterion σ(I): -3 / Redundancy: 4.15 % / Rsym value: 0.07 / Net I/σ(I): 24.9 |
Reflection shell | Resolution: 2.06→2.13 Å / Redundancy: 3.68 % / Mean I/σ(I) obs: 1.71 / Num. unique all: 5186 / Rsym value: 0.614 / % possible all: 96.8 |
-
Processing
Software |
| |||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: 1NJS Resolution: 2.1→47 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
| |||||||||||||||||||||||||
Displacement parameters |
| |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.1→47 Å
| |||||||||||||||||||||||||
Refine LS restraints |
|