+
Open data
-
Basic information
Entry | Database: PDB / ID: 5xqh | ||||||
---|---|---|---|---|---|---|---|
Title | Crystal structure of truncated human Rogdi | ||||||
![]() | Protein rogdi homolog | ||||||
![]() | CELL CYCLE / Rogdi / Kohlschutter-Tonz syndrome | ||||||
Function / homology | ![]() RAVE complex / odontogenesis of dentin-containing tooth / hemopoiesis / hippocampal mossy fiber to CA3 synapse / neurogenesis / brain development / synaptic vesicle / nuclear envelope / perikaryon / axon ...RAVE complex / odontogenesis of dentin-containing tooth / hemopoiesis / hippocampal mossy fiber to CA3 synapse / neurogenesis / brain development / synaptic vesicle / nuclear envelope / perikaryon / axon / dendrite / positive regulation of cell population proliferation Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lee, H. / Lee, C. | ||||||
![]() | ![]() Title: The crystal structure of human Rogdi provides insight into the causes of Kohlschutter-Tonz Syndrome Authors: Lee, H. / Jeong, H. / Choe, J. / Jun, Y. / Lim, C. / Lee, C. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 58 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 44.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
---|
-Related structure data
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 30328.027 Da / Num. of mol.: 1 / Fragment: UNP residues 11-276 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
---|---|
#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.66 Å3/Da / Density % sol: 53.77 % |
---|---|
Crystal grow | Temperature: 277.15 K / Method: vapor diffusion, hanging drop / Details: 11% PEG 4000, 100mM MES pH 6.5, 5mM DTT |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Jul 8, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9794 Å / Relative weight: 1 |
Reflection | Resolution: 2.04→50 Å / Num. obs: 39509 / % possible obs: 99.9 % / Redundancy: 9.4 % / Rmerge(I) obs: 0.082 / Net I/σ(I): 49.8 |
Reflection shell | Highest resolution: 2.04 Å / Redundancy: 9.3 % / Rmerge(I) obs: 0.469 / Mean I/σ(I) obs: 5.9 / % possible all: 99.9 |
-
Processing
Software |
| ||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Details: THE STRUCTURE FACTOR FILE CONTAINS FRIEDEL PAIRS IN I_PLUS/MINUS COLUMNS
| ||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.04→34.57 Å
|