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- PDB-1kzz: DOWNSTREAM REGULATOR TANK BINDS TO THE CD40 RECOGNITION SITE ON TRAF3 -
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Open data
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Basic information
Entry | Database: PDB / ID: 1kzz | ||||||
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Title | DOWNSTREAM REGULATOR TANK BINDS TO THE CD40 RECOGNITION SITE ON TRAF3 | ||||||
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![]() | SIGNALING PROTEIN / CD40 / NF-kB signaling / TANK / TNF receptor / TRAF3 | ||||||
Function / homology | ![]() regulation of interferon-beta production / positive regulation of protein deubiquitination / TRAF3 deficiency - HSE / positive regulation of ubiquitin-specific protease activity / TNF receptor superfamily (TNFSF) members mediating non-canonical NF-kB pathway / Toll signaling pathway / serine/threonine protein kinase complex / CD40 receptor complex / regulation of defense response to virus / TRIF-dependent toll-like receptor signaling pathway ...regulation of interferon-beta production / positive regulation of protein deubiquitination / TRAF3 deficiency - HSE / positive regulation of ubiquitin-specific protease activity / TNF receptor superfamily (TNFSF) members mediating non-canonical NF-kB pathway / Toll signaling pathway / serine/threonine protein kinase complex / CD40 receptor complex / regulation of defense response to virus / TRIF-dependent toll-like receptor signaling pathway / regulation of proteolysis / thioesterase binding / deubiquitinase activator activity / tumor necrosis factor receptor binding / regulation of canonical NF-kappaB signal transduction / toll-like receptor 4 signaling pathway / TRAF6 mediated IRF7 activation / toll-like receptor signaling pathway / molecular function inhibitor activity / type I interferon-mediated signaling pathway / negative regulation of NF-kappaB transcription factor activity / protein K63-linked ubiquitination / negative regulation of tumor necrosis factor-mediated signaling pathway / positive regulation of type I interferon production / canonical NF-kappaB signal transduction / cellular response to interleukin-1 / negative regulation of canonical NF-kappaB signal transduction / ubiquitin ligase complex / regulation of cytokine production / tumor necrosis factor-mediated signaling pathway / TICAM1-dependent activation of IRF3/IRF7 / Activation of IRF3, IRF7 mediated by TBK1, IKKε (IKBKE) / TNFR2 non-canonical NF-kB pathway / Negative regulators of DDX58/IFIH1 signaling / cellular response to ionizing radiation / RING-type E3 ubiquitin transferase / cytoplasmic side of plasma membrane / ubiquitin-protein transferase activity / SARS-CoV-1 activates/modulates innate immune responses / ubiquitin protein ligase activity / Ovarian tumor domain proteases / cellular response to tumor necrosis factor / TRAF3-dependent IRF activation pathway / regulation of apoptotic process / protein phosphatase binding / defense response to virus / molecular adaptor activity / endosome membrane / endosome / apoptotic process / ubiquitin protein ligase binding / DNA damage response / protein kinase binding / SARS-CoV-2 activates/modulates innate and adaptive immune responses / signal transduction / protein-containing complex / mitochondrion / zinc ion binding / identical protein binding / metal ion binding / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Li, C. / Ni, C.-Z. / Havert, M.L. / Cabezas, E. / He, J. / Kaiser, D. / Reed, J.C. / Satterthwait, A.C. / Cheng, G. / Ely, K.R. | ||||||
![]() | ![]() Title: Downstream regulator TANK binds to the CD40 recognition site on TRAF3. Authors: Li, C. / Ni, C.Z. / Havert, M.L. / Cabezas, E. / He, J. / Kaiser, D. / Reed, J.C. / Satterthwait, A.C. / Cheng, G. / Ely, K.R. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 51.1 KB | Display | ![]() |
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PDB format | ![]() | 37 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 370.3 KB | Display | ![]() |
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Full document | ![]() | 384.2 KB | Display | |
Data in XML | ![]() | 7.3 KB | Display | |
Data in CIF | ![]() | 10.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 21833.135 Da / Num. of mol.: 1 / Fragment: Residues 377-568 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Protein/peptide | Mass: 1195.386 Da / Num. of mol.: 1 / Fragment: Residues 177-187 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.32 Å3/Da / Density % sol: 62.97 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 6.7 Details: 100mM MES, 15% PEG1000, pH 6.7, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K |
Crystal grow | *PLUS Details: unpublished data |
-Data collection
Diffraction | Mean temperature: 110 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Sep 6, 2000 |
Radiation | Monochromator: SAGITALLY FOCUSED Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.92 Å / Relative weight: 1 |
Reflection | Resolution: 3.5→50 Å / Num. all: 4457 / Num. obs: 4111 / % possible obs: 100 % / Observed criterion σ(I): -3 / Redundancy: 5.1 % |
Reflection shell | Resolution: 3.5→3.61 Å / Rsym value: 0.321 / % possible all: 99.9 |
Reflection | *PLUS Num. obs: 4458 / % possible obs: 99.9 % / Num. measured all: 22731 / Rmerge(I) obs: 0.079 |
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Processing
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Refinement | Method to determine structure: ![]()
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Refinement step | Cycle: LAST / Resolution: 3.5→50 Å
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Refine LS restraints |
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Refinement | *PLUS Rfactor obs: 0.225 / Rfactor Rfree: 0.307 / Rfactor Rwork: 0.225 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS |