- PDB-5air: Structural analysis of mouse GSK3beta fused with LRP6 peptide. -
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Basic information
Entry
Database: PDB / ID: 5air
Title
Structural analysis of mouse GSK3beta fused with LRP6 peptide.
Components
Low-density lipoprotein receptor-related protein 6,Glycogen synthase kinase-3 beta
Keywords
TRANSFERASE / LRP6 / GSK3 BETA
Function / homology
Function and homology information
hepatic stellate cell activation / B-WICH complex positively regulates rRNA expression / negative regulation of synaptic assembly at neuromuscular junction / negative regulation of neuron maturation / Regulation of HSF1-mediated heat shock response / negative regulation of protein localization to centrosome / re-entry into mitotic cell cycle / Beta-catenin phosphorylation cascade / CRMPs in Sema3A signaling / Disassembly of the destruction complex and recruitment of AXIN to the membrane ...hepatic stellate cell activation / B-WICH complex positively regulates rRNA expression / negative regulation of synaptic assembly at neuromuscular junction / negative regulation of neuron maturation / Regulation of HSF1-mediated heat shock response / negative regulation of protein localization to centrosome / re-entry into mitotic cell cycle / Beta-catenin phosphorylation cascade / CRMPs in Sema3A signaling / Disassembly of the destruction complex and recruitment of AXIN to the membrane / membrane-bounded organelle / positive regulation of synaptic assembly at neuromuscular junction / positive regulation of osteoclast proliferation / Wnt-Frizzled-LRP5/6 complex / Negative regulation of TCF-dependent signaling by WNT ligand antagonists / myotube differentiation / Transcriptional and post-translational regulation of MITF-M expression and activity / Signaling by RNF43 mutants / neural crest formation / negative regulation of neuron migration / cell growth involved in cardiac muscle cell development / positive regulation of cardiac muscle cell differentiation / GSK3B and BTRC:CUL1-mediated-degradation of NFE2L2 / negative regulation of dendrite morphogenesis / Degradation of beta-catenin by the destruction complex / kinase inhibitor activity / toxin transmembrane transporter activity / Wnt receptor activity / protein localization to microtubule / low-density lipoprotein particle receptor activity / neuron projection organization / negative regulation of cardiac muscle hypertrophy / positive regulation of stem cell differentiation / positive regulation of protein localization to cilium / negative regulation of dendrite development / negative regulation of glycogen biosynthetic process / Wnt-protein binding / GLI3 is processed to GLI3R by the proteasome / cellular response to cholesterol / negative regulation of dopaminergic neuron differentiation / maintenance of cell polarity / midbrain dopaminergic neuron differentiation / autosome genomic imprinting / positive regulation of mitochondrial outer membrane permeabilization involved in apoptotic signaling pathway / meiosis I / positive regulation of cilium assembly / negative regulation of protein acetylation / negative regulation of protein serine/threonine kinase activity / bone remodeling / beta-catenin destruction complex / tau-protein kinase / myoblast fusion / regulation of microtubule-based process / dopaminergic neuron differentiation / regulation of protein export from nucleus / regulation of modification of postsynaptic structure / frizzled binding / positive regulation of osteoclast differentiation / axon extension / cellular response to interleukin-3 / Wnt signalosome / negative regulation of TOR signaling / negative regulation of protein localization to nucleus / neural crest cell differentiation / cellular response to glucocorticoid stimulus / meiotic spindle / Disassembly of the destruction complex and recruitment of AXIN to the membrane / regulation of long-term synaptic potentiation / positive regulation of mitochondrial membrane potential / regulation of neurotransmitter receptor localization to postsynaptic specialization membrane / negative regulation of calcineurin-NFAT signaling cascade / regulation of osteoblast differentiation / regulation of axon extension / establishment or maintenance of cell polarity / cellular response to hepatocyte growth factor stimulus / positive regulation of DNA biosynthetic process / establishment of cell polarity / tau-protein kinase activity / regulation of axonogenesis / regulation of dendrite morphogenesis / glycogen metabolic process / dynein complex binding / response to zinc ion / ER overload response / hepatocyte apoptotic process / fat cell differentiation / regulation of neuron projection development / positive regulation of osteoblast proliferation / regulation of neuronal synaptic plasticity / negative regulation of smooth muscle cell apoptotic process / positive regulation of excitatory postsynaptic potential / intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress / canonical Wnt signaling pathway / epithelial to mesenchymal transition / positive regulation of axon extension / coreceptor activity / positive regulation of autophagy / regulation of microtubule cytoskeleton organization / positive regulation of cell cycle / negative regulation of extrinsic apoptotic signaling pathway via death domain receptors Similarity search - Function
Low density lipoprotein receptor-related protein 5/6 / : / : / Glycogen synthase kinase 3, catalytic domain / Low-density lipoprotein receptor repeat class B / LDL-receptor class B (LDLRB) repeat profile. / LDLR class B repeat / Low-density lipoprotein-receptor YWTD domain / Low-density lipoprotein receptor domain class A / Low-density lipoprotein (LDL) receptor class A, conserved site ...Low density lipoprotein receptor-related protein 5/6 / : / : / Glycogen synthase kinase 3, catalytic domain / Low-density lipoprotein receptor repeat class B / LDL-receptor class B (LDLRB) repeat profile. / LDLR class B repeat / Low-density lipoprotein-receptor YWTD domain / Low-density lipoprotein receptor domain class A / Low-density lipoprotein (LDL) receptor class A, conserved site / LDL-receptor class A (LDLRA) domain signature. / LDL-receptor class A (LDLRA) domain profile. / Low-density lipoprotein receptor domain class A / Low-density lipoprotein (LDL) receptor class A repeat / LDL receptor-like superfamily / Six-bladed beta-propeller, TolB-like / Coagulation Factor Xa inhibitory site / Epidermal growth factor-like domain. / EGF-like domain signature 2. / EGF-like domain / Transferase(Phosphotransferase) domain 1 / Transferase(Phosphotransferase); domain 1 / Phosphorylase Kinase; domain 1 / Phosphorylase Kinase; domain 1 / Serine/threonine-protein kinase, active site / Serine/Threonine protein kinases active-site signature. / Protein kinase domain / Serine/Threonine protein kinases, catalytic domain / Protein kinase, ATP binding site / Protein kinases ATP-binding region signature. / Protein kinase domain profile. / Protein kinase domain / Protein kinase-like domain superfamily / 2-Layer Sandwich / Orthogonal Bundle / Mainly Alpha / Alpha Beta Similarity search - Domain/homology
MALONATE ION / Low-density lipoprotein receptor-related protein 6 / Glycogen synthase kinase-3 beta Similarity search - Component
Biological species
Homo sapiens (human) Mus musculus (house mouse)
Method
X-RAY DIFFRACTION / SYNCHROTRON / OTHER / Resolution: 2.53 Å
SHEET DETERMINATION METHOD: DSSP THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS BELOW ... SHEET DETERMINATION METHOD: DSSP THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS BELOW IS ACTUALLY AN 7-STRANDED BARREL THIS IS REPRESENTED BY A 8-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS ARE IDENTICAL. THE SHEETS PRESENTED AS "BA" IN EACH CHAIN ON SHEET RECORDS BELOW IS ACTUALLY AN 7-STRANDED BARREL THIS IS REPRESENTED BY A 8-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS ARE IDENTICAL.
Method to determine structure: OTHER / Resolution: 2.53→20 Å / Cor.coef. Fo:Fc: 0.935 / Cor.coef. Fo:Fc free: 0.905 / SU B: 11.218 / SU ML: 0.233 / Cross valid method: THROUGHOUT / ESU R: 0.315 / ESU R Free: 0.254 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. U VALUES REFINED INDIVIDUALLY
Rfactor
Num. reflection
% reflection
Selection details
Rfree
0.25983
2105
5 %
RANDOM
Rwork
0.21213
-
-
-
obs
0.21451
40183
98.64 %
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Solvent computation
Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK