+Open data
-Basic information
Entry | Database: PDB / ID: 1axi | ||||||
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Title | STRUCTURAL PLASTICITY AT THE HGH:HGHBP INTERFACE | ||||||
Components |
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Keywords | COMPLEX (HORMONE/RECEPTOR) / COMPLEX (HORMONE-RECEPTOR) / COMPLEX (HORMONE-RECEPTOR) complex | ||||||
Function / homology | Function and homology information growth hormone receptor activity / regulation of response to nutrient levels / growth hormone receptor complex / bone maturation / prolactin receptor binding / positive regulation of growth / taurine metabolic process / animal organ development / : / response to gravity ...growth hormone receptor activity / regulation of response to nutrient levels / growth hormone receptor complex / bone maturation / prolactin receptor binding / positive regulation of growth / taurine metabolic process / animal organ development / : / response to gravity / cartilage development involved in endochondral bone morphogenesis / positive regulation of multicellular organism growth / positive regulation of glucose transmembrane transport / hormone metabolic process / proline-rich region binding / positive regulation of insulin-like growth factor receptor signaling pathway / growth hormone receptor binding / response to food / growth hormone receptor signaling pathway / response to cycloheximide / Prolactin receptor signaling / growth factor binding / cytokine binding / cell surface receptor signaling pathway via JAK-STAT / peptide hormone binding / regulation of multicellular organism growth / Synthesis, secretion, and deacylation of Ghrelin / hormone-mediated signaling pathway / Growth hormone receptor signaling / response to glucocorticoid / positive regulation of tyrosine phosphorylation of STAT protein / cellular response to hormone stimulus / response to interleukin-1 / SH2 domain binding / response to nutrient levels / insulin-like growth factor receptor signaling pathway / positive regulation of MAP kinase activity / cytokine activity / endosome lumen / positive regulation of cell differentiation / positive regulation of receptor signaling pathway via JAK-STAT / growth factor activity / hormone activity / cellular response to insulin stimulus / receptor internalization / cytokine-mediated signaling pathway / cytoplasmic ribonucleoprotein granule / endocytosis / positive regulation of peptidyl-tyrosine phosphorylation / response to estradiol / protein phosphatase binding / receptor complex / positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction / external side of plasma membrane / neuronal cell body / lipid binding / protein kinase binding / cell surface / protein homodimerization activity / extracellular space / extracellular region / identical protein binding / membrane / metal ion binding / plasma membrane / cytosol Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.1 Å | ||||||
Authors | Atwell, S. / Ultsch, M. / De Vos, A.M. / Wells, J.A. | ||||||
Citation | Journal: Science / Year: 1997 Title: Structural plasticity in a remodeled protein-protein interface. Authors: Atwell, S. / Ultsch, M. / De Vos, A.M. / Wells, J.A. #1: Journal: Science / Year: 1992 Title: Human Growth Hormone and Extracellular Domain of its Receptor: Crystal Structure of the Complex Authors: De Vos, A.M. / Ultsch, M. / Kossiakoff, A.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1axi.cif.gz | 96.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1axi.ent.gz | 72.4 KB | Display | PDB format |
PDBx/mmJSON format | 1axi.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1axi_validation.pdf.gz | 385.9 KB | Display | wwPDB validaton report |
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Full document | 1axi_full_validation.pdf.gz | 393.2 KB | Display | |
Data in XML | 1axi_validation.xml.gz | 9.4 KB | Display | |
Data in CIF | 1axi_validation.cif.gz | 15.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ax/1axi ftp://data.pdbj.org/pub/pdb/validation_reports/ax/1axi | HTTPS FTP |
-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: 22230.113 Da / Num. of mol.: 1 / Mutation: G120R, K168R, D171T, K172Y, E174A, F176Y Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Plasmid: PB0720 / Cellular location (production host): PERIPLASM / Production host: Escherichia coli (E. coli) / Strain (production host): 34B8 / References: UniProt: P01241 |
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#2: Protein | Mass: 27023.260 Da / Num. of mol.: 1 / Fragment: EXTRACELLULAR BINDING DOMAIN / Mutation: W104A Source method: isolated from a genetically manipulated source Details: HGHBP WITH FUNCTIONALLY CRITICAL TRP 104 MUTATED TO ALA Source: (gene. exp.) Homo sapiens (human) / Plasmid: PB0720 / Cellular location (production host): PERIPLASM / Production host: Escherichia coli (E. coli) / Strain (production host): 33B6 / References: UniProt: P10912 |
#3: Chemical | ChemComp-SO4 / |
#4: 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: 2.98 Å3/Da / Density % sol: 51.37 % | ||||||||||||||||||||
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Crystal grow | Method: streak seeding / pH: 6.5 Details: CRYSTALLIZED BY STREAK SEEDING AT 5MG/ML COMPLEX IN 50MM BIS-TRIS (PH 6.5) 20% SATURATED AMMONIUM SULFATE, streak seeding | ||||||||||||||||||||
Crystal | *PLUS | ||||||||||||||||||||
Crystal grow | *PLUS Method: unknown / Details: used to seeding | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: CHESS / Beamline: F1 / Wavelength: 0.918 |
Detector | Type: ADSC / Detector: CCD / Date: May 5, 1996 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.918 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→100 Å / Num. obs: 28276 / % possible obs: 91.8 % / Observed criterion σ(I): 0 / Redundancy: 4.7 % / Biso Wilson estimate: 16 Å2 / Rmerge(I) obs: 0.057 / Rsym value: 0.057 |
Reflection shell | Resolution: 2.1→2.18 Å / Redundancy: 2.3 % / Rmerge(I) obs: 0.125 / Mean I/σ(I) obs: 7.4 / % possible all: 51.3 |
Reflection | *PLUS Num. measured all: 133933 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: HGH(G120R):HGHBP STRUCTURE (IN PREPARATION) Resolution: 2.1→7 Å / Cross valid method: THROUGHOUT / σ(F): 0
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Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 2.1→7 Å
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Refine LS restraints |
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Software | *PLUS Name: REFMAC / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Num. reflection all: 26402 / Num. reflection obs: 24290 / Rfactor all: 0.19 / Rfactor Rwork: 0.19 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 27.7 Å2 |