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Conserved domains on  [gi|5821919|pdb|1BVO|A]
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Chain A, TRANSCRIPTION FACTOR GAMBIF1

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RHD-n_Dorsal_Dif cd07887
N-terminal sub-domain of the Rel homology domain (RHD) of the arthropod protein Dorsal; ...
 1-175 6.12e-113

N-terminal sub-domain of the Rel homology domain (RHD) of the arthropod protein Dorsal; 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 arthropod Dorsal and Dif (Dorsal-related immunity factor), and similar proteins. Dorsal and Dif are Rel-like transcription factors, which play roles in mediating innate immunity in Drosophila. They are activated via the Toll pathway. Cytoplasmic Dorsal/Dif are inactivated via forming a complex with Cactus, the Drosophila homologue of mammalian I-kappa B proteins. In response to signals, Cactus is degraded and Dorsal/Dif can be transported into the nucleus, where they act as transcription factors. Dorsal is also an essential gene in establishing the proper dorsal/ventral polarity in the developing embryo.


:

Pssm-ID: 143647  Cd Length: 173  Bit Score: 318.28  E-value: 6.12e-113
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A        1 PYVEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTKEGPeHKPHPHNLVGKEGCK 80
Cdd:cd07887   1 PYVRIVEQPTSRALRFRYECEGRSAGSIPGANSTSEGKTFPTIQVVNYDGRAVVVVSCVTKDEP-FRPHPHNLVGKEGCK 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A       81 KGVCTVEINSTTMSYTFNNLGIQCVKKKDVEEALRLRQEIRVDPFRTGFGHAKEPGSIDLNAVRLCFQVFLEGQQrGRFT 160
Cdd:cd07887  80 KGVCTKKINPTEMRIVFQKLGIQCVKKKDVEESLKLREEINVDPFRTGFDHKDQINSIDLNVVRLCFQVFLEDEN-GRFT 158

                       170
                ....*....|....*
1BVO_A      161 EPLTPVVSDIIYDKK 175
Cdd:cd07887 159 VPLPPVVSDPIYDKK 173
 
Name Accession Description Interval E-value
RHD-n_Dorsal_Dif cd07887
N-terminal sub-domain of the Rel homology domain (RHD) of the arthropod protein Dorsal; ...
 1-175 6.12e-113

N-terminal sub-domain of the Rel homology domain (RHD) of the arthropod protein Dorsal; 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 arthropod Dorsal and Dif (Dorsal-related immunity factor), and similar proteins. Dorsal and Dif are Rel-like transcription factors, which play roles in mediating innate immunity in Drosophila. They are activated via the Toll pathway. Cytoplasmic Dorsal/Dif are inactivated via forming a complex with Cactus, the Drosophila homologue of mammalian I-kappa B proteins. In response to signals, Cactus is degraded and Dorsal/Dif can be transported into the nucleus, where they act as transcription factors. Dorsal is also an essential gene in establishing the proper dorsal/ventral polarity in the developing embryo.


Pssm-ID: 143647  Cd Length: 173  Bit Score: 318.28  E-value: 6.12e-113
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A        1 PYVEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTKEGPeHKPHPHNLVGKEGCK 80
Cdd:cd07887   1 PYVRIVEQPTSRALRFRYECEGRSAGSIPGANSTSEGKTFPTIQVVNYDGRAVVVVSCVTKDEP-FRPHPHNLVGKEGCK 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A       81 KGVCTVEINSTTMSYTFNNLGIQCVKKKDVEEALRLRQEIRVDPFRTGFGHAKEPGSIDLNAVRLCFQVFLEGQQrGRFT 160
Cdd:cd07887  80 KGVCTKKINPTEMRIVFQKLGIQCVKKKDVEESLKLREEINVDPFRTGFDHKDQINSIDLNVVRLCFQVFLEDEN-GRFT 158

                       170
                ....*....|....*
1BVO_A      161 EPLTPVVSDIIYDKK 175
Cdd:cd07887 159 VPLPPVVSDPIYDKK 173
RHD_DNA_bind pfam00554
Rel homology DNA-binding domain; Proteins containing the Rel homology domain (RHD) are ...
 3-174 1.23e-93

Rel homology DNA-binding domain; Proteins containing the Rel homology domain (RHD) are eukaryotic transcription factors. The RHD is composed of two structural domains. This is the N-terminal DNA-binding domain that is similar to that found in P53. The C-terminal domain has an immunoglobulin-like fold (See pfam16179) that functions as a dimerization domain.


Pssm-ID: 425749  Cd Length: 169  Bit Score: 269.17  E-value: 1.23e-93
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A          3 VEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTKEGPeHKPHPHNLVGKEgCKKG 82
Cdd:pfam00554   1 LEIVEQPKQRGMRFRYKCEGRSAGSIPGESSTRSKKTFPTVQICNYDGPAVIRVSLVTKDEP-HRPHPHSLVGKD-CKDG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A         83 VCTVEINSTTMSYTFNNLGIQCVKKKDVEEALRLRQEIRVDPFRTGFGHAKEPGSIDLNAVRLCFQVFLEgQQRGRFTEP 162
Cdd:pfam00554  79 VCEVELGPEDMVASFQNLGIQCVKKKDVEEALKERIELNIDPFNVGFEALRQIKDMDLNVVRLCFQAFLP-DTRGNFTTP 157

                         170
                  ....*....|..
1BVO_A        163 LTPVVSDIIYDK 174
Cdd:pfam00554 158 LPPVVSNPIYDK 169
 
Name Accession Description Interval E-value
RHD-n_Dorsal_Dif cd07887
N-terminal sub-domain of the Rel homology domain (RHD) of the arthropod protein Dorsal; ...
 1-175 6.12e-113

N-terminal sub-domain of the Rel homology domain (RHD) of the arthropod protein Dorsal; 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 arthropod Dorsal and Dif (Dorsal-related immunity factor), and similar proteins. Dorsal and Dif are Rel-like transcription factors, which play roles in mediating innate immunity in Drosophila. They are activated via the Toll pathway. Cytoplasmic Dorsal/Dif are inactivated via forming a complex with Cactus, the Drosophila homologue of mammalian I-kappa B proteins. In response to signals, Cactus is degraded and Dorsal/Dif can be transported into the nucleus, where they act as transcription factors. Dorsal is also an essential gene in establishing the proper dorsal/ventral polarity in the developing embryo.


Pssm-ID: 143647  Cd Length: 173  Bit Score: 318.28  E-value: 6.12e-113
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A        1 PYVEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTKEGPeHKPHPHNLVGKEGCK 80
Cdd:cd07887   1 PYVRIVEQPTSRALRFRYECEGRSAGSIPGANSTSEGKTFPTIQVVNYDGRAVVVVSCVTKDEP-FRPHPHNLVGKEGCK 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A       81 KGVCTVEINSTTMSYTFNNLGIQCVKKKDVEEALRLRQEIRVDPFRTGFGHAKEPGSIDLNAVRLCFQVFLEGQQrGRFT 160
Cdd:cd07887  80 KGVCTKKINPTEMRIVFQKLGIQCVKKKDVEESLKLREEINVDPFRTGFDHKDQINSIDLNVVRLCFQVFLEDEN-GRFT 158

                       170
                ....*....|....*
1BVO_A      161 EPLTPVVSDIIYDKK 175
Cdd:cd07887 159 VPLPPVVSDPIYDKK 173
RHD-n cd07827
N-terminal sub-domain of the Rel homology domain (RHD); Proteins containing the Rel homology ...
 1-175 5.64e-96

N-terminal sub-domain of the Rel homology domain (RHD); 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 sub-domain, which may be distantly related to the DNA-binding domain found in P53. The C-terminal sub-domain has an immunoglobulin-like fold and serves as a dimerization module that also binds DNA (see cd00102). The RHD is found in NF-kappa B, nuclear factor of activated T-cells (NFAT), the tonicity-responsive enhancer binding protein (TonEBP), and the arthropod proteins Dorsal and Relish (Rel).


Pssm-ID: 143640  Cd Length: 174  Bit Score: 275.40  E-value: 5.64e-96
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A        1 PYVEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTKEGPeHKPHPHNLVGKEGCK 80
Cdd:cd07827   1 PYLEITEQPKQRGHRFRYECEGRSAGSIPGENSTADRKTFPTVKLRNYNGPAKIVVSLVTKDDP-PKPHPHQLVGKTDCR 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A       81 KGVCTVEINSTT-MSYTFNNLGIQCVKKKDVEEALRLRQEIRVDPFRTGFGHAKEPGSIDLNAVRLCFQVFLEGQQrGRF 159
Cdd:cd07827  80 DGVCEVRLGPKNnMTASFNNLGIQCVRKKDVEEALGQRIQLGIDPFMVHKGPEGNASDIDLNRVRLCFQAFIEDSD-GGF 158

                       170
                ....*....|....*.
1BVO_A      160 TEPLTPVVSDIIYDKK 175
Cdd:cd07827 159 TLPLPPVLSNPIYDKK 174
RHD_DNA_bind pfam00554
Rel homology DNA-binding domain; Proteins containing the Rel homology domain (RHD) are ...
 3-174 1.23e-93

Rel homology DNA-binding domain; Proteins containing the Rel homology domain (RHD) are eukaryotic transcription factors. The RHD is composed of two structural domains. This is the N-terminal DNA-binding domain that is similar to that found in P53. The C-terminal domain has an immunoglobulin-like fold (See pfam16179) that functions as a dimerization domain.


Pssm-ID: 425749  Cd Length: 169  Bit Score: 269.17  E-value: 1.23e-93
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A          3 VEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTKEGPeHKPHPHNLVGKEgCKKG 82
Cdd:pfam00554   1 LEIVEQPKQRGMRFRYKCEGRSAGSIPGESSTRSKKTFPTVQICNYDGPAVIRVSLVTKDEP-HRPHPHSLVGKD-CKDG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A         83 VCTVEINSTTMSYTFNNLGIQCVKKKDVEEALRLRQEIRVDPFRTGFGHAKEPGSIDLNAVRLCFQVFLEgQQRGRFTEP 162
Cdd:pfam00554  79 VCEVELGPEDMVASFQNLGIQCVKKKDVEEALKERIELNIDPFNVGFEALRQIKDMDLNVVRLCFQAFLP-DTRGNFTTP 157

                         170
                  ....*....|..
1BVO_A        163 LTPVVSDIIYDK 174
Cdd:pfam00554 158 LPPVVSNPIYDK 169
RHD-n_NFkB cd07883
N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor of kappa light ...
 1-175 2.30e-59

N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor of kappa light polypeptide gene enhancer in B-cells (NF-kappa B); 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 B1 and B2 families of transcription factors, also referred to as class I members of the NF-kappa B family. In class I NF-kappa Bs, the RHD domain co-occurs with C-terminal ankyrin repeats. Family members include NF-kappa B1 and NF-kappa B2. NF-kappa B1 is commonly referred to as p105 or p50 (proteolytically processed form), while NF-kappa B2 is called 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). p105 and p100 may also act as I-kappa Bs due to their C-terminal ankyrin repeats.


Pssm-ID: 143643  Cd Length: 197  Bit Score: 183.45  E-value: 2.30e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A        1 PYVEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTKEGPEHkPHPHNLVGKEgCK 80
Cdd:cd07883   1 PYLEILEQPKQRGFRFRYGCEGPSHGGLPGASSEKNKKSYPTVKICNYQGPARIVVQLVTNSEPPR-LHAHSLVGKH-CE 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A       81 KGVCTVEINSTTMSYTFNNLGIQCVKKKDVEEALR---LRQEIR----VDPFRTGFG-----------------HAKE-P 135
Cdd:cd07883  79 DGICTVQVGPKDMTAQFPNLGILHVTKKNVVETLEarlLAQCTRgynpGDLVHVDAEgggdrqltdeeqaeirqKAKQqA 158

                       170       180       190       200
                ....*....|....*....|....*....|....*....|
1BVO_A      136 GSIDLNAVRLCFQVFLEgQQRGRFTEPLTPVVSDIIYDKK 175
Cdd:cd07883 159 KSMDLSVVRLCFQAFLP-DSNGSFTRPLKPVISDAIYDSK 197
RHD-n_RelA cd07885
N-terminal sub-domain of the Rel homology domain (RHD) of RelA; Proteins containing the Rel ...
 1-175 5.39e-58

N-terminal sub-domain of the Rel homology domain (RHD) of RelA; 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 domain of the RelA family of transcription factors, categorized as a class II member of the NF-kappa B family. In class II NF-kappa Bs, the RHD domain co-occurs with a C-terminal transactivation domain (TAD). 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). RelA (also called p65) forms heterodimers with NF-kappa B1 (p50) and B2 (p52). RelA also forms homodimers.


Pssm-ID: 143645  Cd Length: 169  Bit Score: 178.91  E-value: 5.39e-58
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A        1 PYVEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTKEGPeHKPHPHNLVGKEgCK 80
Cdd:cd07885   1 PYVEIIEQPKQRGMRFRYKCEGRSAGSIPGERSTDTTKTHPTIKINNYTGPGRVRISLVTKDPP-HKPHPHELVGKD-CK 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A       81 KGVCTVEINSTTMSYTFNNLGIQCVKKKDVEEALRLRQEIRVDPFRTGFghAKEPGSIDLNAVRLCFQVFLEGQQRGRFt 160
Cdd:cd07885  79 DGYYEAELSPDRCIHSFQNLGIQCVKKRDLEQAVSQRIQTNNNPFNVPI--EEQRADYDLNAVRLCFQVTVRDPSGRLL- 155

                       170
                ....*....|....*
1BVO_A      161 ePLTPVVSDIIYDKK 175
Cdd:cd07885 156 -PLPPVLSQPIYDNR 169
RHD-n_c-Rel cd07933
N-terminal sub-domain of the Rel homology domain (RHD) of c-Rel; Proteins containing the Rel ...
 1-175 6.89e-58

N-terminal sub-domain of the Rel homology domain (RHD) of c-Rel; 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 c-Rel family of transcription factors, categorized as a class II member of the NF-kappa B family. In class II NF-kappa Bs, the RHD domain co-occurs with a C-terminal transactivation domain (TAD). 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). c-Rel plays an important role in B cell proliferation and survival.


Pssm-ID: 143649  Cd Length: 172  Bit Score: 178.92  E-value: 6.89e-58
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A        1 PYVEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTKEGPeHKPHPHNLVGKEgCK 80
Cdd:cd07933   1 PYVEIFEQPRQRGMRFRYKCEGRSAGSIPGERSTDNNRTYPSIQILNYTGKGKVRITLVTKNEP-YKPHPHDLVGKD-CR 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A       81 KGVCTVEINSTTMSYTFNNLGIQCVKKKDVEEALRLRQEIRVDPFRTGFGHAKEPGSIDLNAVRLCFQVFLEgQQRGRFT 160
Cdd:cd07933  79 DGYYEAEFGPERRVLAFQNLGIQCVRRREVKEAIMLRISRGINPFNVPEEQLLQIEEYDLNVVRLCFQIFLP-DEHGNYT 157

                       170
                ....*....|....*
1BVO_A      161 EPLTPVVSDIIYDKK 175
Cdd:cd07933 158 TALPPIVSNPIYDNR 172
RHD-n_RelB cd07886
N-terminal sub-domain of the Rel homology domain (RHD) of the reticuloendotheliosis viral ...
 1-175 1.93e-52

N-terminal sub-domain of the Rel homology domain (RHD) of the reticuloendotheliosis viral oncogene homolog B (RelB) protein; 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 RelB family of transcription factors, categorized as class II NF-kappa B family members. In class II NF-kappa Bs, the RHD domain co-occurs with a C-terminal transactivation domain (TAD). 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). RelB, is unable to homodimerize but is a potent transactivator in a heterodimer with NF-kappa B1 (p50) or B2 (p52). It is involved in the regulation of genes that play roles in inflammatory processes and the immune response.


Pssm-ID: 143646  Cd Length: 172  Bit Score: 165.03  E-value: 1.93e-52
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A        1 PYVEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGR-AVVVVSCVTKEGPEHKPHPHNLVGKEgC 79
Cdd:cd07886   1 PRLLITEQPKQRGMRFRYECEGRSAGSILGESSTEANKTQPAIEIQNCIGLkEVTVTVCLVWKDPPHRVHPHGLVGKD-C 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A       80 KKGVCTVEIN-STTMSYTFNNLGIQCVKKKDVEEALRLRQEIRVDPFRTgfGHAKEPGSIDLNAVRLCFQVFLEGQQrgR 158
Cdd:cd07886  80 PNGICQVTLNpHSSPRHSFSNLGIQCVRKREIEAAIETRLQLNIDPFKA--GSLKNHEEVDMNVVRLCFQASYRDDD--G 155

                       170
                ....*....|....*..
1BVO_A      159 FTEPLTPVVSDIIYDKK 175
Cdd:cd07886 156 RKDCLSPVLSEPIYDKK 172
RHD-n_NFkB2 cd07934
N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor kappa B2 (NF-kappa B2) ...
 1-175 9.96e-38

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.


Pssm-ID: 143650  Cd Length: 185  Bit Score: 128.09  E-value: 9.96e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A        1 PYVEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTKEGPEhKPHPHNLVGKEGCK 80
Cdd:cd07934   1 PYLVIIEQPKQRGFRFRYVCEGPSHGGLPGASSEKGRKTYPTVKICNYVGMARIEVDLVTHTDPP-RVHAHSLVGKHCNE 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A       81 KGVCTVEINSTTMSYTFNNLGIQCVKKKDVEEAL--RLRQEIRVDPFRTGFGHAKE----------PGSIDLNAVRLCFQ 148
Cdd:cd07934  80 SGNCSVDVGPKDMTAQFSNLGILHVTKKNMMEILkeKLKRQKLRNTGPYKLTEAEEreleqeakelKKVMDLSIVRLKFT 159

                       170       180
                ....*....|....*....|....*..
1BVO_A      149 VFLEgQQRGRFTEPLTPVVSDIIYDKK 175
Cdd:cd07934 160 AYLR-DSNGSYTLALKPVISDPIHDSK 185
RHD-n_NFkB1 cd07935
N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor of kappa B1 (NF-kappa ...
 1-175 1.02e-36

N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor of kappa B1 (NF-kappa B1); 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 B1 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 B1 is commonly referred to as p105 or p50 (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 B1 is involved in the canonical NF-kappa B signaling pathway which is activated by many agonists and is essential in immune and inflammatory responses, as well as cell survival. p105 is involved in its own specific NF-kappa B signaling pathway which is also implicated in immune and inflammatory responses. p105 may also act as an I-kappa B due to its C-terminal ankyrin repeats. It is also involved in mitogen-activated protein kinase (MAPK) signaling as its degradation leads to the activation of TPL-2, a MAPK kinase kinase which activates ERK pathways.


Pssm-ID: 143651  Cd Length: 202  Bit Score: 125.78  E-value: 1.02e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A        1 PYVEITEQPHPKALRFRYECEGRSAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTKeGPEHKPHPHNLVGKEgCK 80
Cdd:cd07935   1 PYLQILEQPKQRGFRFRYVCEGPSHGGLPGASSEKNKKSYPQVKICNYVGPAKVIVQLVTN-GKNIHLHAHSLVGKH-CE 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A       81 KGVCTVEINSTTMSYTFNNLGIQCVKKKDVEEALRLRQeirVDPFRTGFG------------------------------ 130
Cdd:cd07935  79 DGICTVTAGPKDMVVGFANLGILHVTKKKVFETLEARM---TEACKKGYNpgllvhpelaylqaegggdrqlterekeii 155

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
1BVO_A      131 ---HAKEPGSIDLNAVRLCFQVFLEGQQrGRFTEPLTPVVSDIIYDKK 175
Cdd:cd07935 156 rqaAVQQTKEMDLSVVRLMFTAFLPDST-GGFTRRLEPVVSDAIYDSK 202
RHD-n_Relish cd07884
N-terminal sub-domain of the Rel homology domain (RHD) of the arthropod protein Relish; ...
 1-175 1.01e-31

N-terminal sub-domain of the Rel homology domain (RHD) of the arthropod protein Relish; 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 arthropod Relish protein, in which the RHD domain co-occurs with C-terminal ankyrin repeats. Family members are sometimes referred to as p110 or p68 (proteolytically processed form). Relish is an NF-kappa B-like transcription factor, which plays a role in mediating innate immunity in Drosophila. It is activated via the Imd (immune deficiency) pathway, which triggers phosphorylation of Relish. IKK-dependent proteolytic cleavage of Relish (which involves Dredd) results in a smaller active form (without the C-terminal ankyrin repeats), which is transported into the nucleus and functions as a transactivator.


Pssm-ID: 143644  Cd Length: 159  Bit Score: 111.75  E-value: 1.01e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A        1 PYVEITEQPHPKaLRFRYECEGR-SAGSIPGVNTTAEQKTFPSIQVHGYRGRAVVVVSCVTKEGPEHKPHPHNLVGKEGC 79
Cdd:cd07884   1 PFLRIVEQPVDK-FRFRYKSEMHgTHGSLLGERSTSSKKTFPTVKLCNYRGQAVIRCSLYQADDNRRKPHVHKLVGKQGD 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A       80 kKGVCTVEI----NSTTMSYTFNNLGIQCVKKKDVEEALRLRQeirvdpfrtgfghakepgSIDLNAVRLCFQVFLEGqQ 155
Cdd:cd07884  80 -DDVCDPHDievsPEGDYVAMFQNMGIIHTAKKNIPEELYKKK------------------NMNLNQVVLRFQAFAVS-A 139

                       170       180
                ....*....|....*....|
1BVO_A      156 RGRFTEPLTPVVSDIIYDKK 175
Cdd:cd07884 140 NGHLRPICPPVYSNPINNLK 159
RHD-n_NFAT_like cd07927
N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor of activated T-cells ...
 1-117 1.87e-07

N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor of activated T-cells (NFAT) proteins and similar proteins; 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 NFAT family of transcription factors. NFAT transcription complexes are a target of calcineurin, a calcium dependent phosphatase, and activate genes that are mainly involved in cell-cell interaction. Upon de-phosphorylation of the nuclear localization signal, NFAT enters the nucleus and acts as a transcription factor; its export from the nucleus is triggered by phosphorylation via export kinases. NFATs play important roles in mediating the immune response, and are found in T cells, B Cells, NK cells, mast cells, and monocytes. NFATs are also found in various non-hematopoietic cell types, where they play roles in development. This group also contains the N-terminal RHD sub-domain of the non-calcium regulated tonicity-responsive enhancer binding protein (TonEBP), also called NFAT5. Mammalian TonEBP regulates the expression of genes in response to tonicity. It plays a pivotal role in urinary concentrating mechanisms in kidney medulla, by triggering the accumulation of osmolytes that enable renal medullary cells to tolerate high levels of urea and salt.


Pssm-ID: 143648  Cd Length: 161  Bit Score: 48.42  E-value: 1.87e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1BVO_A        1 PYVEITEQPHPKAlRFRYECEGrSAGSIPGvnttAEQKTFPSIQVHGYRGRAVVVVSCVTKEGpEHKPHPHNLVG----- 75
Cdd:cd07927   1 YELRIEVQPEPHH-RARYETEG-SRGAVKA----PSTGGFPTVKLHGYMEPVGLQVFIGTASG-RLKPHAFYQVHritgk 73

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|
1BVO_A       76 -----KEGCKKGVCTVEI---NSTTMSYTFNNLGIQCVKKKDVEEALRLR 117
Cdd:cd07927  74 tttpcKEKIIGNTKVLEIplePKNNMTATIDCAGILKLRNADIELRKGET 123
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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