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- PDB-2pld: NUCLEAR MAGNETIC RESONANCE STRUCTURE OF AN SH2 DOMAIN OF PHOSPHOL... -

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Entry
Database: PDB / ID: 2pld
TitleNUCLEAR MAGNETIC RESONANCE STRUCTURE OF AN SH2 DOMAIN OF PHOSPHOLIPASE C-GAMMA1 COMPLEXED WITH A HIGH AFFINITY BINDING PEPTIDE
Components
  • PHOSPHOLIPASE C GAMMA-1, C-TERMINAL SH2 DOMAIN
  • PHOSPHOPEPTIDE FROM PDGF
KeywordsPHOSPHORIC DIESTER HYDROLASE
Function / homology
Function and homology information


platelet-derived growth factor-activated receptor activity / platelet activating factor receptor activity / metanephric glomerular mesangial cell proliferation involved in metanephros development / platelet-derived growth factor beta-receptor activity / cell migration involved in coronary angiogenesis / response to ceramide / metanephric mesenchymal cell migration / metanephric comma-shaped body morphogenesis / positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway / metanephric glomerular capillary formation ...platelet-derived growth factor-activated receptor activity / platelet activating factor receptor activity / metanephric glomerular mesangial cell proliferation involved in metanephros development / platelet-derived growth factor beta-receptor activity / cell migration involved in coronary angiogenesis / response to ceramide / metanephric mesenchymal cell migration / metanephric comma-shaped body morphogenesis / positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway / metanephric glomerular capillary formation / lung growth / smooth muscle cell chemotaxis / positive regulation of hepatic stellate cell activation / cell migration involved in vasculogenesis / aorta morphogenesis / retina vasculature development in camera-type eye / phosphoinositide phospholipase C / positive regulation of cell proliferation by VEGF-activated platelet derived growth factor receptor signaling pathway / metanephric S-shaped body morphogenesis / metanephric mesenchyme development / platelet-derived growth factor binding / glycosaminoglycan biosynthetic process / phosphatidylinositol metabolic process / phospholipid catabolic process / cardiac myofibril assembly / positive regulation of chemotaxis / vascular endothelial growth factor binding / phosphatidylinositol phospholipase C activity / ruffle assembly / smooth muscle tissue development / response to fluid shear stress / COP9 signalosome / platelet-derived growth factor receptor binding / adrenal gland development / growth factor binding / positive regulation of Rho protein signal transduction / intrinsic component of plasma membrane / skeletal system morphogenesis / positive regulation of DNA biosynthetic process / tissue homeostasis / positive regulation of calcium ion import / positive regulation of smooth muscle cell migration / platelet-derived growth factor receptor signaling pathway / positive regulation of epithelial cell migration / positive regulation of phosphatidylinositol 3-kinase activity / platelet-derived growth factor receptor-beta signaling pathway / inner ear development / positive regulation of phosphoprotein phosphatase activity / phosphatidylinositol 3-kinase binding / embryonic organ development / regulation of peptidyl-tyrosine phosphorylation / response to hyperoxia / positive regulation of collagen biosynthetic process / regulation of actin cytoskeleton organization / positive regulation of phospholipase C activity / cellular response to vascular endothelial growth factor stimulus / response to retinoic acid / cell chemotaxis / phosphatidylinositol-mediated signaling / lysosomal lumen / cellular response to epidermal growth factor stimulus / positive regulation of mitotic nuclear division / ruffle / response to toxic substance / positive regulation of smooth muscle cell proliferation / receptor protein-tyrosine kinase / transmembrane receptor protein tyrosine kinase activity / positive regulation of fibroblast proliferation / cellular response to hydrogen peroxide / positive regulation of kinase activity / positive regulation of reactive oxygen species metabolic process / male gonad development / positive regulation of MAP kinase activity / peptidyl-tyrosine phosphorylation / wound healing / lamellipodium / cell migration / transmembrane receptor protein tyrosine kinase signaling pathway / in utero embryonic development / positive regulation of phosphatidylinositol 3-kinase signaling / response to estradiol / cytoplasmic vesicle / protein tyrosine kinase activity / apical plasma membrane / receptor complex / response to estrogen / positive regulation of ERK1 and ERK2 cascade / aging / MAPK cascade / intracellular signal transduction / multicellular organism development / positive regulation of cell migration / positive regulation of protein kinase B signaling / protein autophosphorylation / positive regulation of apoptotic process / intracellular membrane-bounded organelle / signaling receptor binding / focal adhesion / positive regulation of cell population proliferation / calcium ion binding
Tyrosine-protein kinase, receptor class III, conserved site / Immunoglobulin subtype 2 / Immunoglobulin-like fold / Immunoglobulin / Immunoglobulin I-set / EF-hand domain pair / Protein kinase-like domain superfamily / Tyrosine-protein kinase, active site / Immunoglobulin-like domain / Immunoglobulin subtype ...Tyrosine-protein kinase, receptor class III, conserved site / Immunoglobulin subtype 2 / Immunoglobulin-like fold / Immunoglobulin / Immunoglobulin I-set / EF-hand domain pair / Protein kinase-like domain superfamily / Tyrosine-protein kinase, active site / Immunoglobulin-like domain / Immunoglobulin subtype / EF-hand domain / Protein kinase, ATP binding site / Pleckstrin homology domain / Phospholipase C, phosphatidylinositol-specific, Y domain / SH3 domain / Serine-threonine/tyrosine-protein kinase, catalytic domain / Phosphoinositide phospholipase C family / SH2 domain / Phosphatidylinositol-specific phospholipase C, X domain / Protein kinase domain / C2 domain / Phosphatidylinositol-4, 5-bisphosphate phosphodiesterase gamma / PH-like domain superfamily / C2 domain superfamily / EF-Hand 1, calcium-binding site / Tyrosine-protein kinase, catalytic domain / SH2 domain / Platelet-derived growth factor receptor beta / Immunoglobulin-like domain superfamily / SH3-like domain superfamily / 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase gamma-1 / PLC-gamma, C-terminal SH2 domain / PLC-gamma, N-terminal SH2 domain / 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase gamma-1, SH3 domain / SH2 domain superfamily / PLC-like phosphodiesterase, TIM beta/alpha-barrel domain superfamily / SH2 domain / SHC Adaptor Protein / 2-Layer Sandwich / Alpha Beta
1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase gamma-1 / Platelet-derived growth factor receptor beta
Biological speciesBos taurus (cattle)
MethodSOLUTION NMR
AuthorsPascal, S.M. / Singer, A.U. / Gish, G. / Yamazaki, T. / Shoelson, S.E. / Pawson, T. / Kay, L.E. / Forman-Kay, J.D.
CitationJournal: Cell(Cambridge,Mass.) / Year: 1994
Title: Nuclear magnetic resonance structure of an SH2 domain of phospholipase C-gamma 1 complexed with a high affinity binding peptide.
Authors: Pascal, S.M. / Singer, A.U. / Gish, G. / Yamazaki, T. / Shoelson, S.E. / Pawson, T. / Kay, L.E. / Forman-Kay, J.D.
Validation Report
SummaryFull reportAbout validation report
History
DepositionAug 19, 1994Processing site: BNL
Revision 1.0Jan 26, 1995Provider: repository / Type: Initial release
Revision 1.1Mar 3, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Nov 29, 2017Group: Derived calculations / Other
Category: pdbx_database_status / pdbx_struct_assembly ...pdbx_database_status / pdbx_struct_assembly / pdbx_struct_oper_list / struct_conf / struct_conf_type
Item: _pdbx_database_status.process_site

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: PHOSPHOLIPASE C GAMMA-1, C-TERMINAL SH2 DOMAIN
B: PHOSPHOPEPTIDE FROM PDGF


Theoretical massNumber of molelcules
Total (without water)13,7562
Polymers13,7562
Non-polymers00
Water0
1


TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
Atom site foot note1: RESIDUES A 1 - A 10, A 99 - A 105, B 1 - B 2, AND B 11 - B 12 ARE DISORDERED IN SOLUTION; THEREFORE, COORDINATES DISPLAY LARGE RMSD VALUES FOR THESE ATOMS.
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)1 / -
Representative

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Components

#1: Protein PHOSPHOLIPASE C GAMMA-1, C-TERMINAL SH2 DOMAIN


Mass: 12275.924 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Bos taurus (cattle)
References: UniProt: P08487, phosphoinositide phospholipase C
#2: Protein/peptide PHOSPHOPEPTIDE FROM PDGF /


Mass: 1480.532 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Bos taurus (cattle) / References: UniProt: P09619

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR

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Sample preparation

Crystal grow
*PLUS
Method: other / Details: NMR

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Processing

Software
NameClassification
X-PLORmodel building
X-PLORrefinement
X-PLORphasing
NMR softwareName: X-PLOR / Developer: BRUNGER / Classification: refinement
NMR ensembleConformers submitted total number: 1

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