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- PDB-1czz: STRUCTURE OF TNF RECEPTOR ASSOCIATED FACTOR 2 IN COMPLEX WITH A 1... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1czz | ||||||
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Title | STRUCTURE OF TNF RECEPTOR ASSOCIATED FACTOR 2 IN COMPLEX WITH A 17-RESIDUE CD40 PEPTIDE | ||||||
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![]() | APOPTOSIS / B-SANDWICH / PROTEIN-PEPTIDE COMPLEX | ||||||
Function / homology | ![]() cellular response to erythropoietin / CD40 receptor binding / tumor necrosis factor receptor superfamily complex / B cell mediated immunity / sphingolipid binding / immune response-regulating cell surface receptor signaling pathway / response to peptide / positive regulation of protein kinase C signaling / IRE1-TRAF2-ASK1 complex / Defective RIPK1-mediated regulated necrosis ...cellular response to erythropoietin / CD40 receptor binding / tumor necrosis factor receptor superfamily complex / B cell mediated immunity / sphingolipid binding / immune response-regulating cell surface receptor signaling pathway / response to peptide / positive regulation of protein kinase C signaling / IRE1-TRAF2-ASK1 complex / Defective RIPK1-mediated regulated necrosis / varicosity / TRAF2-GSTP1 complex / CD40 signaling pathway / negative regulation of glial cell apoptotic process / Regulation by c-FLIP / CASP8 activity is inhibited / Dimerization of procaspase-8 / tumor necrosis factor binding / TNF receptor superfamily (TNFSF) members mediating non-canonical NF-kB pathway / interleukin-17-mediated signaling pathway / programmed necrotic cell death / TNF signaling / Caspase activation via Death Receptors in the presence of ligand / positive regulation of isotype switching to IgG isotypes / CD40 receptor complex / signal transduction involved in regulation of gene expression / positive regulation of endothelial cell apoptotic process / mitogen-activated protein kinase kinase kinase binding / positive regulation of tumor necrosis factor-mediated signaling pathway / thioesterase binding / tumor necrosis factor receptor binding / mRNA stabilization / positive regulation of extrinsic apoptotic signaling pathway / regulation of immunoglobulin production / vesicle membrane / TNFR1-induced proapoptotic signaling / non-canonical NF-kappaB signal transduction / RIPK1-mediated regulated necrosis / TRAF6 mediated IRF7 activation / B cell activation / response to cobalamin / B cell proliferation / defense response to protozoan / response to type II interferon / TRAF6 mediated NF-kB activation / protein K63-linked ubiquitination / regulation of JNK cascade / cellular response to interleukin-1 / intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress / cellular response to nitric oxide / regulation of protein-containing complex assembly / positive regulation of blood vessel endothelial cell migration / protein autoubiquitination / signaling adaptor activity / ubiquitin ligase complex / positive regulation of B cell proliferation / positive regulation of tyrosine phosphorylation of STAT protein / positive regulation of JUN kinase activity / tumor necrosis factor-mediated signaling pathway / positive regulation of interleukin-12 production / positive regulation of interleukin-2 production / phosphatidylinositol 3-kinase/protein kinase B signal transduction / response to endoplasmic reticulum stress / positive regulation of GTPase activity / TNFR1-induced NF-kappa-B signaling pathway / Regulation of NF-kappa B signaling / antigen binding / TNFR2 non-canonical NF-kB pathway / Regulation of TNFR1 signaling / positive regulation of MAP kinase activity / RING-type E3 ubiquitin transferase / protein catabolic process / Regulation of necroptotic cell death / cytoplasmic side of plasma membrane / positive regulation of T cell cytokine production / platelet activation / positive regulation of DNA-binding transcription factor activity / intracellular calcium ion homeostasis / cellular response to mechanical stimulus / positive regulation of angiogenesis / ubiquitin-protein transferase activity / Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell / cellular response to tumor necrosis factor / signaling receptor activity / positive regulation of NF-kappaB transcription factor activity / protein-macromolecule adaptor activity / cell cortex / protein-containing complex assembly / cellular response to lipopolysaccharide / protein phosphatase binding / regulation of apoptotic process / positive regulation of canonical NF-kappaB signal transduction / defense response to virus / molecular adaptor activity / Ub-specific processing proteases / inflammatory response / positive regulation of protein phosphorylation / membrane raft / protein domain specific binding / external side of plasma membrane Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Ye, H. / Park, Y.C. / Kreishman, M. / Kieff, E. / Wu, H. | ||||||
![]() | ![]() Title: The structural basis for the recognition of diverse receptor sequences by TRAF2. Authors: Ye, H. / Park, Y.C. / Kreishman, M. / Kieff, E. / Wu, H. #1: ![]() Title: Structural Basis for Self-Association and Receptor Recognition of Human Traf2 Authors: Park, Y.C. / Burkitt, V. / Villa, A.R. / Tong, L. / Wu, H. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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PDBx/mmCIF format | ![]() | 116.8 KB | Display | ![]() |
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PDB format | ![]() | 94.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
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-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related 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: 21132.373 Da / Num. of mol.: 3 / Fragment: TRAF DOMAIN Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Protein/peptide | Mass: 1010.144 Da / Num. of mol.: 2 / Fragment: TRAF2-BINDING REGION / Source method: obtained synthetically Details: THIS PEPTIDE WAS CHEMICALLY SYNTHESIZED. THE SEQUENCE OF THIS PEPTIDE NATURALLY OCCURS IN HUMANS (HOMO SAPIENS). References: UniProt: P25942 #3: Water | ChemComp-HOH / | Compound details | THE DEPOSITED TRAF2-RECEPTOR PEPTIDE COMPLEX CONTAINS 3 TRAF2 PER ASYMMETRIC UNIT, ONE OF WHICH ...THE DEPOSITED TRAF2-RECEPTOR PEPTIDE COMPLEX CONTAINS 3 TRAF2 PER ASYMMETRIC | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.82 Å3/Da / Density % sol: 56.4 % | ||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion / pH: 5.6 Details: PEG4K, MES, PH 5.6, VAPOR DIFFUSION, temperature 293K | ||||||||||||||||||||
Crystal grow | *PLUS Method: unknown | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Jan 12, 1998 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.937 Å / Relative weight: 1 |
Reflection | *PLUS Highest resolution: 2.7 Å / % possible obs: 98.6 % / Rmerge(I) obs: 0.044 |
Reflection shell | *PLUS % possible obs: 99.4 % / Rmerge(I) obs: 0.255 |
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Processing
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Refinement | Resolution: 2.7→20 Å / Rfactor Rfree: 0.267 / Rfactor Rwork: 0.221 / Rfactor obs: 0.221 / σ(F): 2 | ||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.7→20 Å
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