+Open data
-Basic information
Entry | Database: PDB / ID: 1nun | ||||||
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Title | Crystal Structure Analysis of the FGF10-FGFR2b Complex | ||||||
Components |
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Keywords | HORMONE/GROWTH FACTOR/MEMBRANE PROTEIN / BETA-TREFOIL FOLD / IMMUNOGLOBULIN-LIKE DOMAIN / HORMONE-GROWTH FACTOR-MEMBRANE PROTEIN COMPLEX | ||||||
Function / homology | Function and homology information urothelial cell proliferation / positive regulation of urothelial cell proliferation / bronchiole morphogenesis / mesenchymal-epithelial cell signaling involved in lung development / lung proximal/distal axis specification / tear secretion / positive regulation of white fat cell proliferation / positive regulation of hair follicle cell proliferation / embryonic genitalia morphogenesis / secretion by lung epithelial cell involved in lung growth ...urothelial cell proliferation / positive regulation of urothelial cell proliferation / bronchiole morphogenesis / mesenchymal-epithelial cell signaling involved in lung development / lung proximal/distal axis specification / tear secretion / positive regulation of white fat cell proliferation / positive regulation of hair follicle cell proliferation / embryonic genitalia morphogenesis / secretion by lung epithelial cell involved in lung growth / type 2 fibroblast growth factor receptor binding / regulation of activin receptor signaling pathway / semicircular canal fusion / muscle cell fate commitment / salivary gland development / regulation of cell cycle => GO:0051726 / type II pneumocyte differentiation / Harderian gland development / radial glial cell differentiation / : / lung saccule development / prostatic bud formation / regulation of saliva secretion / : / Regulation of gene expression in early pancreatic precursor cells / FGFRL1 modulation of FGFR1 signaling / lung epithelium development / female genitalia morphogenesis / submandibular salivary gland formation / Signaling by FGFR2 amplification mutants / Signaling by FGFR2 fusions / fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptotic process in bone marrow cell / fibroblast growth factor receptor signaling pathway involved in hemopoiesis / fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow / bud outgrowth involved in lung branching / fibroblast growth factor receptor signaling pathway involved in mammary gland specification / lateral sprouting from an epithelium / mammary gland bud formation / branch elongation involved in salivary gland morphogenesis / mesenchymal cell differentiation involved in lung development / metanephros morphogenesis / lacrimal gland development / otic vesicle formation / prostate gland morphogenesis / embryonic camera-type eye development / positive regulation of keratinocyte proliferation / regulation of smooth muscle cell differentiation / orbitofrontal cortex development / regulation of morphogenesis of a branching structure / squamous basal epithelial stem cell differentiation involved in prostate gland acinus development / branching morphogenesis of a nerve / positive regulation of lymphocyte proliferation / embryonic organ morphogenesis / endochondral bone growth / morphogenesis of embryonic epithelium / pituitary gland development / epidermis morphogenesis / bud elongation involved in lung branching / positive regulation of epithelial cell proliferation involved in lung morphogenesis / membranous septum morphogenesis / pyramidal neuron development / mesonephros development / reproductive structure development / male genitalia morphogenesis / limb bud formation / lung lobe morphogenesis / regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling / gland morphogenesis / fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development / ventricular zone neuroblast division / embryonic digestive tract morphogenesis / epithelial cell proliferation involved in salivary gland morphogenesis / mesenchymal cell differentiation / branching involved in prostate gland morphogenesis / mesenchymal cell proliferation involved in lung development / smooth muscle cell differentiation / positive regulation of epithelial cell proliferation involved in wound healing / positive regulation of keratinocyte migration / branching involved in labyrinthine layer morphogenesis / tissue regeneration / FGFR2b ligand binding and activation / fibroblast growth factor receptor binding / FGFR2c ligand binding and activation / Activated point mutants of FGFR2 / regulation of osteoblast proliferation / Phospholipase C-mediated cascade; FGFR2 / FGFR1b ligand binding and activation / fibroblast growth factor receptor activity / induction of positive chemotaxis / branching involved in salivary gland morphogenesis / embryonic pattern specification / outflow tract septum morphogenesis / organ induction / Downstream signaling of activated FGFR1 / Phospholipase C-mediated cascade: FGFR1 / positive regulation of phospholipase activity / lung-associated mesenchyme development / metanephros development / digestive tract development / mesodermal cell differentiation Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.9 Å | ||||||
Authors | Yeh, B.K. / Igarashi, M. / Eliseenkova, A.V. / Plotnikov, A.N. / Sher, I. / Ron, D. / Aaronson, S.A. / Mohammadi, M. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2003 Title: Structural basis by which alternative splicing confers specificity in fibroblast growth factor receptors. Authors: Yeh, B.K. / Igarashi, M. / Eliseenkova, A.V. / Plotnikov, A.N. / Sher, I. / Ron, D. / Aaronson, S.A. / Mohammadi, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1nun.cif.gz | 80 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1nun.ent.gz | 62.2 KB | Display | PDB format |
PDBx/mmJSON format | 1nun.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/nu/1nun ftp://data.pdbj.org/pub/pdb/validation_reports/nu/1nun | HTTPS FTP |
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-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: 16813.279 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: FGF10 / Plasmid: pET-9c / Species (production host): Escherichia coli / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: O15520 | ||||
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#2: Protein | Mass: 25957.633 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Plasmid: pET-28a / Species (production host): Escherichia coli / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: P21802 | ||||
#3: Chemical | #4: Chemical | ChemComp-15P / | #5: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.61 Å3/Da / Density % sol: 65.92 % | |||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 8.5 Details: PEG 400, ammonium sulfate, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K | |||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / pH: 7.5 | |||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 90 K | ||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X4A / Wavelength: 0.97880, 0.97933, 0.97169 | ||||||||||||
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Nov 15, 2001 | ||||||||||||
Radiation | Monochromator: KOHZU double crystal monochromator / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.9→25 Å / Num. all: 26231 / Num. obs: 15965 / % possible obs: 99.3 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 | ||||||||||||
Reflection shell | Resolution: 2.9→3.14 Å / % possible all: 100 | ||||||||||||
Reflection | *PLUS Lowest resolution: 25 Å / Num. obs: 14520 / Num. measured all: 279164 / Rmerge(I) obs: 0.064 | ||||||||||||
Reflection shell | *PLUS % possible obs: 100 % / Rmerge(I) obs: 0.279 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 2.9→25 Å / Rfactor Rfree error: 0.008 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 2 / Stereochemistry target values: Engh & Huber
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 33.0623 Å2 / ksol: 0.290463 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 41.3 Å2
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Refine analyze | Luzzati coordinate error free: 0.47 Å / Luzzati sigma a free: 0.64 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.9→25 Å
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Refine LS restraints |
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LS refinement shell | Highest resolution: 2.9 Å / Total num. of bins used: 6 /
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Xplor file |
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Refinement | *PLUS Lowest resolution: 25 Å / % reflection Rfree: 5 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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