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- PDB-1wlp: Solution Structure Of The P22Phox-P47Phox Complex -

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Basic information

Entry
Database: PDB / ID: 1wlp
TitleSolution Structure Of The P22Phox-P47Phox Complex
Components
  • Cytochrome b-245 light chain
  • Neutrophil cytosol factor 1
KeywordsOXIDOREDUCTASE/Signaling Protein / SH3 domain / polyproline / OXIDOREDUCTASE-Signaling Protein COMPLEX
Function / homology
Function and homology information


negative regulation of glomerular filtration by angiotensin / smooth muscle hypertrophy / regulation of respiratory burst involved in inflammatory response / neutrophil-mediated killing of gram-positive bacterium / superoxide-generating NADPH oxidase activator activity / positive regulation of mucus secretion / cellular response to L-glutamine / neutrophil-mediated killing of fungus / phagolysosome / positive regulation of toll-like receptor 2 signaling pathway ...negative regulation of glomerular filtration by angiotensin / smooth muscle hypertrophy / regulation of respiratory burst involved in inflammatory response / neutrophil-mediated killing of gram-positive bacterium / superoxide-generating NADPH oxidase activator activity / positive regulation of mucus secretion / cellular response to L-glutamine / neutrophil-mediated killing of fungus / phagolysosome / positive regulation of toll-like receptor 2 signaling pathway / positive regulation of defense response to bacterium / mucus secretion / perinuclear endoplasmic reticulum / leukotriene metabolic process / Cross-presentation of particulate exogenous antigens (phagosomes) / cytochrome complex assembly / NADPH oxidase complex / superoxide-generating NAD(P)H oxidase activity / response to yeast / cellular response to testosterone stimulus / respiratory burst / WNT5:FZD7-mediated leishmania damping / respiratory burst involved in defense response / response to aldosterone / phosphatidylinositol-3,4-bisphosphate binding / regulation of release of sequestered calcium ion into cytosol / ROS and RNS production in phagocytes / hydrogen peroxide biosynthetic process / protein targeting to membrane / superoxide anion generation / superoxide metabolic process / Detoxification of Reactive Oxygen Species / positive regulation of reactive oxygen species biosynthetic process / cellular response to angiotensin / tertiary granule membrane / RHO GTPases Activate NADPH Oxidases / RAC2 GTPase cycle / RAC3 GTPase cycle / cellular defense response / specific granule membrane / positive regulation of superoxide anion generation / stress fiber / positive regulation of endothelial cell proliferation / RAC1 GTPase cycle / positive regulation of smooth muscle cell proliferation / phosphatidylinositol binding / response to interleukin-1 / positive regulation of phagocytosis / secretory granule / epithelial cell proliferation / response to activity / cellular response to glucose stimulus / response to nutrient levels / establishment of localization in cell / cellular response to mechanical stimulus / cellular response to gamma radiation / positive regulation of interleukin-6 production / SH3 domain binding / VEGFA-VEGFR2 Pathway / cytoplasmic side of plasma membrane / phagocytic vesicle membrane / positive regulation of tumor necrosis factor production / cellular response to tumor necrosis factor / positive regulation of cell growth / response to hypoxia / electron transfer activity / endosome / apical plasma membrane / response to xenobiotic stimulus / inflammatory response / protein heterodimerization activity / innate immune response / focal adhesion / neuronal cell body / heme binding / dendrite / Neutrophil degranulation / endoplasmic reticulum membrane / metal ion binding / membrane / plasma membrane / cytosol / cytoplasm
Similarity search - Function
Cytochrome b558 alpha-subunit / Cytochrome Cytochrome b558 alpha-subunit / Neutrophil cytosol factor 1 / Neutrophil cytosol factor 1, C-terminal / Neutrophil cytosol factor 1, PBR/AIR / Neutrophil cytosol factor 1, PX domain / Neutrophil cytosol factor 1, first SH3 domain / Neutrophil cytosol factor 1, second SH3 domain / NADPH oxidase subunit p47Phox, C terminal domain / Neutrophil cytosol factor 1, PBR/AIR ...Cytochrome b558 alpha-subunit / Cytochrome Cytochrome b558 alpha-subunit / Neutrophil cytosol factor 1 / Neutrophil cytosol factor 1, C-terminal / Neutrophil cytosol factor 1, PBR/AIR / Neutrophil cytosol factor 1, PX domain / Neutrophil cytosol factor 1, first SH3 domain / Neutrophil cytosol factor 1, second SH3 domain / NADPH oxidase subunit p47Phox, C terminal domain / Neutrophil cytosol factor 1, PBR/AIR / : / PhoX homologous domain, present in p47phox and p40phox. / PX domain profile. / PX domain / Phox homology / PX domain superfamily / SH3 Domains / SH3 domain / SH3 type barrels. / Src homology 3 domains / SH3-like domain superfamily / Src homology 3 (SH3) domain profile. / SH3 domain / Roll / Mainly Beta
Similarity search - Domain/homology
Cytochrome b-245 light chain / Neutrophil cytosol factor 1
Similarity search - Component
Biological speciesHomo sapiens (human)
MethodSOLUTION NMR
AuthorsOgura, K. / Torikai, S. / Saikawa, K. / Yuzawa, S. / Sumimoto, H. / Inagaki, F.
CitationJournal: J.Biol.Chem. / Year: 2006
Title: NMR solution structure of the tandem Src homology 3 domains of p47phox complexed with a p22phox-derived proline-rich peptide
Authors: Ogura, K. / Nobuhisa, I. / Yuzawa, S. / Takeya, R. / Torikai, S. / Saikawa, K. / Sumimoto, H. / Inagaki, F.
History
DepositionJun 29, 2004Deposition site: PDBJ / Processing site: PDBJ
Revision 1.0Oct 4, 2005Provider: repository / Type: Initial release
Revision 1.1Apr 30, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Mar 2, 2022Group: Database references / Derived calculations
Category: database_2 / pdbx_struct_assembly ...database_2 / pdbx_struct_assembly / pdbx_struct_oper_list / struct_ref_seq_dif
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession / _struct_ref_seq_dif.details
Revision 1.4May 29, 2024Group: Data collection / Category: chem_comp_atom / chem_comp_bond

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: Cytochrome b-245 light chain
B: Neutrophil cytosol factor 1


Theoretical massNumber of molelcules
Total (without water)17,9502
Polymers17,9502
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)1 / 20structures with the lowest energy
Representative

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Components

#1: Protein/peptide Cytochrome b-245 light chain / Flavocytochrome B558 / p22phox


Mass: 2595.971 Da / Num. of mol.: 1 / Fragment: Alpha Polypeptide (1-25)
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Homo sapiens (human) / Plasmid: pGEX-6P-1 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: P13498
#2: Protein Neutrophil cytosol factor 1 / P47Phox


Mass: 15354.016 Da / Num. of mol.: 1 / Fragment: Tandem SH3 domain
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Homo sapiens (human) / Plasmid: pGEX-4T-1 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: P14598

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR

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NMR measurement

RadiationProtocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M
Radiation wavelengthRelative weight: 1
NMR spectrometerType: Varian INOVA / Manufacturer: Varian / Model: INOVA / Field strength: 800 MHz

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Processing

NMR softwareName: CNS / Classification: refinement
RefinementSoftware ordinal: 1 / Details: This structure was also refined with ARIA
NMR ensembleConformer selection criteria: structures with the lowest energy
Conformers calculated total number: 20 / Conformers submitted total number: 1

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