+
Open data
-
Basic information
Entry | Database: PDB / ID: 1d9c | ||||||
---|---|---|---|---|---|---|---|
Title | BOVINE INTERFERON-GAMMA AT 2.0 ANGSTROMS | ||||||
![]() | INTERFERON-GAMMA | ||||||
![]() | IMMUNE SYSTEM / helical homodimer | ||||||
Function / homology | ![]() Interferon gamma signaling / Regulation of IFNG signaling / IFNG signaling activates MAPKs / type II interferon receptor binding / humoral immune response / positive regulation of B cell proliferation / cytokine activity / defense response to virus / adaptive immune response / positive regulation of transcription by RNA polymerase II / extracellular space Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() | ||||||
![]() | Randal, M. / Kossiakoff, A.A. | ||||||
![]() | ![]() Title: The 2.0 A structure of bovine interferon-gamma; assessment of the structural differences between species. Authors: Randal, M. / Kossiakoff, A.A. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 61.6 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 46.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 365.5 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 369.7 KB | Display | |
Data in XML | ![]() | 6.2 KB | Display | |
Data in CIF | ![]() | 9.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
| ||||||||
Details | the asymmetric unit contains the biologically relevant homodimer |
-
Components
#1: Protein | Mass: 14255.316 Da / Num. of mol.: 2 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: 2.15 Å3/Da / Density % sol: 42.92 % |
---|---|
Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 6 Details: MES, sodium chloride, sodium citrate , pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
Crystal | *PLUS Density % sol: 39 % |
Crystal grow | *PLUS |
Components of the solutions | *PLUS Conc.: 50 %sat / Common name: sodium citrate |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2→27 Å / Num. all: 16274 / Num. obs: 71885 / % possible obs: 97 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 4.4 % / Biso Wilson estimate: 22.4 Å2 / Rmerge(I) obs: 0.03 / Net I/σ(I): 72.5 |
Reflection shell | Resolution: 2.02→2.07 Å / % possible all: 86.5 |
Reflection | *PLUS Num. obs: 16274 / Num. measured all: 71855 |
Reflection shell | *PLUS % possible obs: 86.5 % |
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Resolution: 2→15 Å / Rfactor Rfree error: 0.007 / Data cutoff high rms absF: 349992.23 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber Details: NCS restraints were applied to individual helices, BULK SOLVENT MODEL USED
| ||||||||||||||||||||||||||||||||||||
Solvent computation | Solvent model: flat model / Bsol: 63.9842 Å2 / ksol: 0.341298 e/Å3 | ||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 35.9 Å2
| ||||||||||||||||||||||||||||||||||||
Refine analyze |
| ||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→15 Å
| ||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 2→2.12 Å / Rfactor Rfree error: 0.025 / Total num. of bins used: 6
| ||||||||||||||||||||||||||||||||||||
Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
|