3DO7


Conserved Protein Domain Family
RHD-n_NFkB2

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cd07934: RHD-n_NFkB2 
Click on image for an interactive view with Cn3D
N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor kappa B2 (NF-kappa B2)
Proteins containing the Rel homology domain (RHD) are metazoan transcription factors. The RHD is composed of two structural sub-domains; this model characterizes the N-terminal RHD sub-domain of the NF-kappa B2 family of transcription factors, a class I member of the NF-kappa B family. In class I NF-kappa Bs, the RHD domain co-occurs with C-terminal ankyrin repeats. NF-kappa B2 is commonly referred to as p100 or p52 (proteolytically processed form). NF-kappa B proteins are part of a protein complex that acts as a transcription factor, which is responsible for regulating a host of cellular responses to a variety of stimuli. This complex tightly regulates the expression of a large number of genes, and is involved in processes such as adaptive and innate immunity, stress response, inflammation, cell adhesion, proliferation and apoptosis. The cytosolic NF-kappa B complex is activated via phosphorylation of the ankyrin-repeat containing inhibitory protein I-kappa B, which dissociates from the complex and exposes the nuclear localization signal of the heterodimer (NF-kappa B and REL). NF-kappa B2 is involved in the alternative NF-kappa B signaling pathway which is activated by few agonists and plays an important role in secondary lymphoid organogenesis, maturation of B-cells, and adaptive humoral immunity. p100 may also act as an I-kappa B due to its C-terminal ankyrin repeats.
Statistics
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PSSM-Id: 143650
View PSSM: cd07934
Aligned: 4 rows
Threshold Bit Score: 359.981
Threshold Setting Gi: 114326269
Created: 15-Sep-2009
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
DNA binding
Conserved site includes 12 residues -Click on image for an interactive view with Cn3D
Feature 1:DNA binding site [nucleic acid binding site]
Evidence:
  • Structure:3DO7_B: Human NF-kappa B2 (p52)/RelB heterodimer binds DNA, only the NF-kappa B2 and DNA strands are shown, contacts at 4A
    View structure with Cn3D
  • Structure:3DO7: Human NF-kappa B2 (p52)/RelB heterodimer binds DNA, contacts at 4A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                      # ## ##  ###                                                      
3DO7_B         2 PYLVIVEQPKQRgFRFRYGCEgPSHGGLPGASsekGRKTYPTVKICNYEgPAKIEVDLVTHSdpPRAHAHSLVGKQCSel 81
gi 114326269  53 PYIQIIEEPKQRgFRFRYECEgPSHGGLPGASserNRRTYPTVKVLNFVgNARVEVQLVTHTdpPRVHAHSLVGRHCNes 132
gi 1708618    37 PYLVIIEQPKQRgFRFRYVCEgPSHGGLPGASsekGHKTYPTVKICNYEgMARIEVDLVTHSdpPRVHAHSLVGKQCNea 116
gi 47115583   43 SYLSIIEQPKQRgFRFRYVCEgPSHRGLPGASsekGKKTFPTVKIFNYVgMARIEVDLVTHTdpPRVHAHSLVGKHSNkt 122
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                              # ##                                                      
3DO7_B        82 GICAVSVGPkDMTAQFNNLGVLHVTKKNMMGTMIQKLQRQrlrsrp--qglteaEQRELEQEAKELKKVMDLSIVRLRFS 159
gi 114326269 133 GVCSVDVGPsDFTAQFSNLGILHVTKRGVVEVLTKRLKEEkrkvkgpgykfsdaEENALMQEAKELGKNMDLNIVRLKFT 212
gi 1708618   117 GNCVAIVGPkDMTAQFSNLGVLHVTKKNMMEIMKEKLKKQktrntn--gllteaELREIELEAKELKKVMDLSIVRLRFT 194
gi 47115583  123 GNCIVTVGPeDMTAQFNNLGIVHVTKKSQTEILKEKMKRNilrntgr-ntltevEERKIEQEVKDLKKVTDLSIVRLKFT 201
                        170       180
                 ....*....|....*....|....*.
Feature 1                                 #
3DO7_B       160 AFLRDSDGSFSLPLKPVISQPIHDSK 185
gi 114326269 213 AYLQDSNGSYTRALKPVVSNPIYDSK 238
gi 1708618   195 AYLRDSSGNFTLALQPVISDPIHDSK 220
gi 47115583  202 AYLPDSNGAYTLALPPVISDPIHDSK 227

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