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Open data
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Basic information
Entry | Database: PDB / ID: 1ax8 | ||||||
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Title | Human obesity protein, leptin | ||||||
![]() | OBESITY PROTEIN | ||||||
![]() | CYTOKINE / HELICAL CYTOKINE / HEMATOPOIETIC FACTOR / DIABETES / OBESITY | ||||||
Function / homology | ![]() regulation of lipoprotein lipid oxidation / cellular response to L-ascorbic acid / positive regulation of fat cell apoptotic process / negative regulation of glutamine transport / negative regulation of appetite by leptin-mediated signaling pathway / negative regulation of glucagon secretion / regulation of endothelial cell proliferation / regulation of natural killer cell proliferation / leptin receptor binding / positive regulation of luteinizing hormone secretion ...regulation of lipoprotein lipid oxidation / cellular response to L-ascorbic acid / positive regulation of fat cell apoptotic process / negative regulation of glutamine transport / negative regulation of appetite by leptin-mediated signaling pathway / negative regulation of glucagon secretion / regulation of endothelial cell proliferation / regulation of natural killer cell proliferation / leptin receptor binding / positive regulation of luteinizing hormone secretion / regulation of natural killer cell mediated cytotoxicity / bone growth / regulation of natural killer cell activation / positive regulation of monoatomic ion transport / glycerol biosynthetic process / elastin metabolic process / leptin-mediated signaling pathway / positive regulation of follicle-stimulating hormone secretion / regulation of steroid biosynthetic process / regulation of intestinal cholesterol absorption / regulation of bone remodeling / regulation of brown fat cell differentiation / positive regulation of peroxisome proliferator activated receptor signaling pathway / positive regulation of hepatic stellate cell activation / adult feeding behavior / regulation of nitric-oxide synthase activity / bone mineralization involved in bone maturation / sexual reproduction / activation of protein kinase C activity / negative regulation of cartilage development / ovulation from ovarian follicle / negative regulation of appetite / positive regulation of developmental growth / leukocyte tethering or rolling / energy reserve metabolic process / bile acid metabolic process / negative regulation of glucose import / prostaglandin secretion / cellular response to leptin stimulus / cardiac muscle hypertrophy / hormone metabolic process / Signaling by Leptin / aorta development / insulin secretion / intestinal absorption / positive regulation of p38MAPK cascade / peptide hormone receptor binding / negative regulation of vasoconstriction / eating behavior / regulation of gluconeogenesis / fatty acid beta-oxidation / central nervous system neuron development / regulation of cytokine production involved in inflammatory response / regulation of insulin secretion / response to dietary excess / negative regulation of lipid storage / T cell differentiation / positive regulation of TOR signaling / response to vitamin E / Synthesis, secretion, and deacylation of Ghrelin / regulation of angiogenesis / adipose tissue development / phagocytosis / positive regulation of insulin receptor signaling pathway / cellular response to retinoic acid / positive regulation of T cell proliferation / energy homeostasis / positive regulation of tyrosine phosphorylation of STAT protein / positive regulation of interleukin-12 production / cholesterol metabolic process / negative regulation of autophagy / response to activity / positive regulation of interleukin-8 production / female pregnancy / determination of adult lifespan / positive regulation of receptor signaling pathway via JAK-STAT / response to insulin / placenta development / hormone activity / lipid metabolic process / Synthesis, secretion, and inactivation of Glucagon-like Peptide-1 (GLP-1) / regulation of blood pressure / Transcriptional regulation of white adipocyte differentiation / positive regulation of protein import into nucleus / circadian rhythm / positive regulation of interleukin-6 production / cellular response to insulin stimulus / glucose metabolic process / positive regulation of reactive oxygen species metabolic process / positive regulation of tumor necrosis factor production / response to estradiol / glucose homeostasis / positive regulation of cold-induced thermogenesis / angiogenesis / response to ethanol / positive regulation of MAPK cascade / positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction / response to hypoxia / regulation of cell cycle / intracellular signal transduction Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Zhang, F. / Beals, J.M. / Briggs, S.L. / Clawson, D.K. / Wery, J.-P. / Schevitz, R.W. | ||||||
![]() | ![]() Title: Crystal structure of the obese protein leptin-E100. Authors: Zhang, F. / Basinski, M.B. / Beals, J.M. / Briggs, S.L. / Churgay, L.M. / Clawson, D.K. / DiMarchi, R.D. / Furman, T.C. / Hale, J.E. / Hsiung, H.M. / Schoner, B.E. / Smith, D.P. / Zhang, X.Y. ...Authors: Zhang, F. / Basinski, M.B. / Beals, J.M. / Briggs, S.L. / Churgay, L.M. / Clawson, D.K. / DiMarchi, R.D. / Furman, T.C. / Hale, J.E. / Hsiung, H.M. / Schoner, B.E. / Smith, D.P. / Zhang, X.Y. / Wery, J.P. / Schevitz, R.W. #1: ![]() Title: Erratum. Positional Cloning of the Mouse Obese Gene and its Human Homologue Authors: Zhang, Y. / Proenca, R. / Maffei, M. / Barone, M. / Leopold, L. / Friedman, J.M. #2: ![]() Title: Positional Cloning of the Mouse Obese Gene and its Human Homologue Authors: Zhang, Y. / Proenca, R. / Maffei, M. / Barone, M. / Leopold, L. / Friedman, J.M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 35.2 KB | Display | ![]() |
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PDB format | ![]() | 27.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 15984.296 Da / Num. of mol.: 1 / Mutation: W100E 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: 3.5 Å3/Da / Density % sol: 65.4 % |
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Crystal grow | pH: 7.5 Details: PROTEIN WAS CRYSTALLIZED FROM 1.8M NA FORMATE, 100MM TRIS, PH 7.5 |
Crystal grow | *PLUS Method: unknown |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU / Detector: IMAGE PLATE / Date: Sep 1, 1996 / Details: MIRRORS |
Radiation | Monochromator: NI FILTER / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→15 Å / Num. obs: 8404 / % possible obs: 99.2 % / Observed criterion σ(I): 1 / Redundancy: 5.4 % / Rmerge(I) obs: 0.052 / Rsym value: 0.054 / Net I/σ(I): 14.5 |
Reflection shell | Resolution: 2.4→2.44 Å / Redundancy: 4.5 % / Rmerge(I) obs: 0.221 / Mean I/σ(I) obs: 8.5 / Rsym value: 0.263 / % possible all: 99.5 |
Reflection | *PLUS Num. measured all: 45300 |
Reflection shell | *PLUS % possible obs: 99.5 % |
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Processing
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Refinement | Method to determine structure: ![]()
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Displacement parameters | Biso mean: 39.3 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.4→8 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.4→2.51 Å / Rfactor Rfree error: 0.035 / Total num. of bins used: 8
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Xplor file |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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LS refinement shell | *PLUS Rfactor obs: 0.322 |