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Open data
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Basic information
Entry | Database: PDB / ID: 1b8k | ||||||
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Title | Neurotrophin-3 from Human | ||||||
![]() | PROTEIN (NEUROTROPHIN-3) | ||||||
![]() | HORMONE/GROWTH FACTOR / COMPLEX (GROWTH FACTOR-GROWTH FACTOR) / NEUROTROPHIN / HORMONE-GROWTH FACTOR COMPLEX | ||||||
Function / homology | ![]() NTF3 activates NTRK3 signaling / NTF3 activates NTRK2 (TRKB) signaling / Activated NTRK3 signals through PLCG1 / Signaling by NTRK3 (TRKC) / nerve growth factor receptor binding / negative regulation of peptidyl-tyrosine phosphorylation / nerve growth factor signaling pathway / nerve development / induction of positive chemotaxis / peripheral nervous system development ...NTF3 activates NTRK3 signaling / NTF3 activates NTRK2 (TRKB) signaling / Activated NTRK3 signals through PLCG1 / Signaling by NTRK3 (TRKC) / nerve growth factor receptor binding / negative regulation of peptidyl-tyrosine phosphorylation / nerve growth factor signaling pathway / nerve development / induction of positive chemotaxis / peripheral nervous system development / Activated NTRK3 signals through PI3K / activation of GTPase activity / regulation of neuron differentiation / chemoattractant activity / positive regulation of receptor internalization / Activated NTRK3 signals through RAS / cell surface receptor protein tyrosine kinase signaling pathway / activation of protein kinase B activity / neuron projection morphogenesis / growth factor activity / positive regulation of MAP kinase activity / modulation of chemical synaptic transmission / memory / positive regulation of peptidyl-tyrosine phosphorylation / synaptic vesicle / positive regulation of peptidyl-serine phosphorylation / cell-cell signaling / nervous system development / regulation of apoptotic process / negative regulation of neuron apoptotic process / positive regulation of cell migration / axon / signaling receptor binding / dendrite / positive regulation of cell population proliferation / signal transduction / extracellular space / extracellular region Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Robinson, R.C. / Radziejewski, C. / Stuart, D.I. / Jones, E.Y. / Choe, S. | ||||||
![]() | ![]() Title: The structures of the neurotrophin 4 homodimer and the brain-derived neurotrophic factor/neurotrophin 4 heterodimer reveal a common Trk-binding site. Authors: Robinson, R.C. / Radziejewski, C. / Spraggon, G. / Greenwald, J. / Kostura, M.R. / Burtnick, L.D. / Stuart, D.I. / Choe, S. / Jones, E.Y. #1: ![]() Title: Heterodimers of the Neurotrophic Factors: Formation, Isolation, and Differential Stability Authors: Radziejewski, C. / Robinson, R.C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 30.4 KB | Display | ![]() |
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PDB format | ![]() | 19.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 360.1 KB | Display | ![]() |
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Full document | ![]() | 363.4 KB | Display | |
Data in XML | ![]() | 3.3 KB | Display | |
Data in CIF | ![]() | 4.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1b8mC ![]() 1b98C ![]() 1bnfS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 13649.402 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.48 Å3/Da / Density % sol: 50 % | ||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 5.6 Details: CRYSTALLIZATION CONDITIONS: 7% ISOPROPANOL 185 MM NACITRATE PH 5.6 | ||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 15 ℃ / pH: 8 / Method: vapor diffusion | ||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: FUJI / Detector: IMAGE PLATE |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.94 Å / Relative weight: 1 |
Reflection | Resolution: 2.15→20 Å / Num. obs: 7414 / % possible obs: 82 % / Redundancy: 2 % / Rmerge(I) obs: 0.047 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1BNF Resolution: 2.15→20 Å / Data cutoff high absF: 10000000 / Data cutoff low absF: 0.001 / Cross valid method: THROUGHOUT / σ(F): 0
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Displacement parameters | Biso mean: 42.3 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.15→20 Å
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Refine LS restraints |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Lowest resolution: 20 Å / σ(F): 0 / % reflection Rfree: 5 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 42.3 Å2 |