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Conserved domains on  [gi|1958783512|ref|XP_038968361|]
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TFIIA-alpha and beta-like factor isoform X2 [Rattus norvegicus]

Protein Classification

transcription initiation factor IIA subunit 1 family protein( domain architecture ID 12042495)

transcription initiation factor IIA (TFIIA) subunit 1 family protein similar to TFIIA, a component of the transcription machinery of RNA polymerase II that plays an important role in transcriptional activation

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TFIIA pfam03153
Transcription factor IIA, alpha/beta subunit; Transcription initiation factor IIA (TFIIA) is a ...
 57-483 1.95e-65

Transcription factor IIA, alpha/beta subunit; Transcription initiation factor IIA (TFIIA) is a heterotrimer, the three subunits being known as alpha, beta, and gamma, in order of molecular weight. The N and C-terminal domains of the gamma subunit are represented in pfam02268 and pfam02751, respectively. This family represents the precursor that yields both the alpha and beta subunits. The TFIIA heterotrimer is an essential general transcription initiation factor for the expression of genes transcribed by RNA polymerase II. Together with TFIID, TFIIA binds to the promoter region; this is the first step in the formation of a pre-initiation complex (PIC). Binding of the rest of the transcription machinery follows this step. After initiation, the PIC does not completely dissociate from the promoter. Some components, including TFIIA, remain attached and re-initiate a subsequent round of transcription.


:

Pssm-ID: 460829 [Multi-domain]  Cd Length: 344  Bit Score: 214.59  E-value: 1.95e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512  57 LWETKVLQSKATE---DFFRNSVQAPLFTlqlphglppalqstasllipagrtlqsftpedlnascaanfafpgypIHVP 133
Cdd:pfam03153  33 LWQSKLSQSKVAEfpwDPKPEPPHPPPFV-----------------------------------------------IKQE 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 134 AGMALQTASGHLYKVNVPVvvtQTSGRAEILQHPFQQVlqqlgQPSIIQTTVPTLHP---CSLQAETEKSHRM------- 203
Cdd:pfam03153  66 PGVTLQPASGPQAQLYKNV---QAQGAAQRAAQPLQQQ-----QGSAAQSSINALQAgasQQQQALALPQQQPqpqqqqq 137

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 204 ETALQQPTVLHSTP-VDRKHTENATSERRvlpgnelrpqestqyislpgvgfPPQVALTESSlepvlGAsANLTQNLHGG 282
Cdd:pfam03153 138 QQQQQQQQQQQQQQqQQQQQQEQAQQAPQ-----------------------QGGLNNSQTD-----GA-DDALEDWEGV 188

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 283 PFTQGPPGTlRHHVLDTQLHS-LRDRIygcdsvkQLRKIEEPSSLRVSEKSCTSERDLNIQVT--DDDINEIIQIDGTGD 359
Cdd:pfam03153 189 LAQRRAAGA-PEELGRVEIDRmLREQI-------AARAKQMGGGLMLPLKEALKGKSRAKKSRkaPRATAEIAQLDGAGD 260

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 360 NSSAEEGgsirdadenefpgiieagdlkvleeevdsvSNEDStanssdnedhqidalEEDPLNSG-DDVSEQDAPDLFDT 438
Cdd:pfam03153 261 DSDDEES------------------------------SNEDD---------------DEDAINSDlDDPDDDDDDDLEDT 295

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*....
gi 1958783512 439 DN----VIVCQYDKIHRSKNRWKFYLKDGVMCFGGRDYVFAKAIGEAEW 483
Cdd:pfam03153 296 DNalghVMLCQYDKVQRVKNKWKCTLKDGVMTVNGKDYVFHKATGEFEW 344
 
Name Accession Description Interval E-value
TFIIA pfam03153
Transcription factor IIA, alpha/beta subunit; Transcription initiation factor IIA (TFIIA) is a ...
 57-483 1.95e-65

Transcription factor IIA, alpha/beta subunit; Transcription initiation factor IIA (TFIIA) is a heterotrimer, the three subunits being known as alpha, beta, and gamma, in order of molecular weight. The N and C-terminal domains of the gamma subunit are represented in pfam02268 and pfam02751, respectively. This family represents the precursor that yields both the alpha and beta subunits. The TFIIA heterotrimer is an essential general transcription initiation factor for the expression of genes transcribed by RNA polymerase II. Together with TFIID, TFIIA binds to the promoter region; this is the first step in the formation of a pre-initiation complex (PIC). Binding of the rest of the transcription machinery follows this step. After initiation, the PIC does not completely dissociate from the promoter. Some components, including TFIIA, remain attached and re-initiate a subsequent round of transcription.


Pssm-ID: 460829 [Multi-domain]  Cd Length: 344  Bit Score: 214.59  E-value: 1.95e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512  57 LWETKVLQSKATE---DFFRNSVQAPLFTlqlphglppalqstasllipagrtlqsftpedlnascaanfafpgypIHVP 133
Cdd:pfam03153  33 LWQSKLSQSKVAEfpwDPKPEPPHPPPFV-----------------------------------------------IKQE 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 134 AGMALQTASGHLYKVNVPVvvtQTSGRAEILQHPFQQVlqqlgQPSIIQTTVPTLHP---CSLQAETEKSHRM------- 203
Cdd:pfam03153  66 PGVTLQPASGPQAQLYKNV---QAQGAAQRAAQPLQQQ-----QGSAAQSSINALQAgasQQQQALALPQQQPqpqqqqq 137

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 204 ETALQQPTVLHSTP-VDRKHTENATSERRvlpgnelrpqestqyislpgvgfPPQVALTESSlepvlGAsANLTQNLHGG 282
Cdd:pfam03153 138 QQQQQQQQQQQQQQqQQQQQQEQAQQAPQ-----------------------QGGLNNSQTD-----GA-DDALEDWEGV 188

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 283 PFTQGPPGTlRHHVLDTQLHS-LRDRIygcdsvkQLRKIEEPSSLRVSEKSCTSERDLNIQVT--DDDINEIIQIDGTGD 359
Cdd:pfam03153 189 LAQRRAAGA-PEELGRVEIDRmLREQI-------AARAKQMGGGLMLPLKEALKGKSRAKKSRkaPRATAEIAQLDGAGD 260

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 360 NSSAEEGgsirdadenefpgiieagdlkvleeevdsvSNEDStanssdnedhqidalEEDPLNSG-DDVSEQDAPDLFDT 438
Cdd:pfam03153 261 DSDDEES------------------------------SNEDD---------------DEDAINSDlDDPDDDDDDDLEDT 295

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*....
gi 1958783512 439 DN----VIVCQYDKIHRSKNRWKFYLKDGVMCFGGRDYVFAKAIGEAEW 483
Cdd:pfam03153 296 DNalghVMLCQYDKVQRVKNKWKCTLKDGVMTVNGKDYVFHKATGEFEW 344
TFIIA_alpha_beta_like cd07976
Precursor of TFIIA alpha and beta subunits and similar proteins; Transcription factor II A ...
 426-483 3.26e-28

Precursor of TFIIA alpha and beta subunits and similar proteins; Transcription factor II A (TFIIA) is one of the general transcription factors for RNA polymerase II. TFIIA increases the affinity of TATA-binding protein (TBP) for DNA in order to assemble the initiation complex. TFIIA also functions as an activator during development and differentiation, and is involved in transcription from TATA-less promoters. TFIIA is composed of more than one subunit in various organisms. Mammalian TFIIA large subunits (TFIIA alpha and beta) and the smaller subunit (TFIIA gamma) form a heterotrimer. TFIIA alpha and beta are encoded by a single gene (TFIIA_alpha_beta), its protein product is post-translationally processed and cleaved. TOA1 and TOA2 are the two subunits of Yeast TFIIA which correspond to Mammalian TFIIA_alpha_beta and TFIIA gamma, respectively. TOA1 and TOA2 form a heterodimeric protein complex. TFIIA_alpha_beta alone is sufficient for transcription in early embryogenesis, but the cleaved forms, TFIIA alpha and TFIIA beta, represent the vast majority of TFIIA in most differentiated cells. The exact functional differences between cleaved and uncleaved forms are not yet clear. This model also contains paralogs of the canonical TFIIA_alpha_beta, such as the human ALF, which may be involved in gametogenesis and early embryogenesis (and is also subject to proteolytic cleavage).


Pssm-ID: 199899 [Multi-domain]  Cd Length: 102  Bit Score: 107.61  E-value: 3.26e-28
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1958783512 426 DVSEQDAPDLFDTDNVIVCQYDKIHRSKNRWKFYLKDGVMCFGGRDYVFAKAIGEAEW 483
Cdd:cd07976    45 GAASFPWDPKPETENIVLCQYDKVTRVKNKWKCTLKDGIMTLNGKDYVFQKATGEFEW 102
TOA1 COG5149
Transcription initiation factor IIA, large chain [Transcription];
335-483 4.23e-14

Transcription initiation factor IIA, large chain [Transcription];


Pssm-ID: 227478 [Multi-domain]  Cd Length: 293  Bit Score: 72.79  E-value: 4.23e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 335 SERDLNIQVTDDDINEIIQIDGTGDNSSAEEGGSIrDADENEfpgiieagdlkVLEEEVDSvsnedstansSDNEdhqid 414
Cdd:COG5149   183 SEWDGERMRRRDGKQGIHQYERLSEGPAHAFKGKP-TTAKDE-----------GMFSDLDD----------SDVD----- 235

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1958783512 415 aleedplnSGDDVSEQDAPDlfdtDNVIVCQYDKIHRSKNRWKFYLKDGVMCFGGRDYVFAKAIGEAEW 483
Cdd:COG5149   236 --------SGDSEIEGTKGS----TNCMLCLYDKVNMSKGKWKCTFKDGVVSINNIDYVFNKAQGELEW 292
 
Name Accession Description Interval E-value
TFIIA pfam03153
Transcription factor IIA, alpha/beta subunit; Transcription initiation factor IIA (TFIIA) is a ...
 57-483 1.95e-65

Transcription factor IIA, alpha/beta subunit; Transcription initiation factor IIA (TFIIA) is a heterotrimer, the three subunits being known as alpha, beta, and gamma, in order of molecular weight. The N and C-terminal domains of the gamma subunit are represented in pfam02268 and pfam02751, respectively. This family represents the precursor that yields both the alpha and beta subunits. The TFIIA heterotrimer is an essential general transcription initiation factor for the expression of genes transcribed by RNA polymerase II. Together with TFIID, TFIIA binds to the promoter region; this is the first step in the formation of a pre-initiation complex (PIC). Binding of the rest of the transcription machinery follows this step. After initiation, the PIC does not completely dissociate from the promoter. Some components, including TFIIA, remain attached and re-initiate a subsequent round of transcription.


Pssm-ID: 460829 [Multi-domain]  Cd Length: 344  Bit Score: 214.59  E-value: 1.95e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512  57 LWETKVLQSKATE---DFFRNSVQAPLFTlqlphglppalqstasllipagrtlqsftpedlnascaanfafpgypIHVP 133
Cdd:pfam03153  33 LWQSKLSQSKVAEfpwDPKPEPPHPPPFV-----------------------------------------------IKQE 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 134 AGMALQTASGHLYKVNVPVvvtQTSGRAEILQHPFQQVlqqlgQPSIIQTTVPTLHP---CSLQAETEKSHRM------- 203
Cdd:pfam03153  66 PGVTLQPASGPQAQLYKNV---QAQGAAQRAAQPLQQQ-----QGSAAQSSINALQAgasQQQQALALPQQQPqpqqqqq 137

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 204 ETALQQPTVLHSTP-VDRKHTENATSERRvlpgnelrpqestqyislpgvgfPPQVALTESSlepvlGAsANLTQNLHGG 282
Cdd:pfam03153 138 QQQQQQQQQQQQQQqQQQQQQEQAQQAPQ-----------------------QGGLNNSQTD-----GA-DDALEDWEGV 188

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 283 PFTQGPPGTlRHHVLDTQLHS-LRDRIygcdsvkQLRKIEEPSSLRVSEKSCTSERDLNIQVT--DDDINEIIQIDGTGD 359
Cdd:pfam03153 189 LAQRRAAGA-PEELGRVEIDRmLREQI-------AARAKQMGGGLMLPLKEALKGKSRAKKSRkaPRATAEIAQLDGAGD 260

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 360 NSSAEEGgsirdadenefpgiieagdlkvleeevdsvSNEDStanssdnedhqidalEEDPLNSG-DDVSEQDAPDLFDT 438
Cdd:pfam03153 261 DSDDEES------------------------------SNEDD---------------DEDAINSDlDDPDDDDDDDLEDT 295

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*....
gi 1958783512 439 DN----VIVCQYDKIHRSKNRWKFYLKDGVMCFGGRDYVFAKAIGEAEW 483
Cdd:pfam03153 296 DNalghVMLCQYDKVQRVKNKWKCTLKDGVMTVNGKDYVFHKATGEFEW 344
TFIIA_alpha_beta_like cd07976
Precursor of TFIIA alpha and beta subunits and similar proteins; Transcription factor II A ...
 426-483 3.26e-28

Precursor of TFIIA alpha and beta subunits and similar proteins; Transcription factor II A (TFIIA) is one of the general transcription factors for RNA polymerase II. TFIIA increases the affinity of TATA-binding protein (TBP) for DNA in order to assemble the initiation complex. TFIIA also functions as an activator during development and differentiation, and is involved in transcription from TATA-less promoters. TFIIA is composed of more than one subunit in various organisms. Mammalian TFIIA large subunits (TFIIA alpha and beta) and the smaller subunit (TFIIA gamma) form a heterotrimer. TFIIA alpha and beta are encoded by a single gene (TFIIA_alpha_beta), its protein product is post-translationally processed and cleaved. TOA1 and TOA2 are the two subunits of Yeast TFIIA which correspond to Mammalian TFIIA_alpha_beta and TFIIA gamma, respectively. TOA1 and TOA2 form a heterodimeric protein complex. TFIIA_alpha_beta alone is sufficient for transcription in early embryogenesis, but the cleaved forms, TFIIA alpha and TFIIA beta, represent the vast majority of TFIIA in most differentiated cells. The exact functional differences between cleaved and uncleaved forms are not yet clear. This model also contains paralogs of the canonical TFIIA_alpha_beta, such as the human ALF, which may be involved in gametogenesis and early embryogenesis (and is also subject to proteolytic cleavage).


Pssm-ID: 199899 [Multi-domain]  Cd Length: 102  Bit Score: 107.61  E-value: 3.26e-28
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1958783512 426 DVSEQDAPDLFDTDNVIVCQYDKIHRSKNRWKFYLKDGVMCFGGRDYVFAKAIGEAEW 483
Cdd:cd07976    45 GAASFPWDPKPETENIVLCQYDKVTRVKNKWKCTLKDGIMTLNGKDYVFQKATGEFEW 102
TOA1 COG5149
Transcription initiation factor IIA, large chain [Transcription];
335-483 4.23e-14

Transcription initiation factor IIA, large chain [Transcription];


Pssm-ID: 227478 [Multi-domain]  Cd Length: 293  Bit Score: 72.79  E-value: 4.23e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958783512 335 SERDLNIQVTDDDINEIIQIDGTGDNSSAEEGGSIrDADENEfpgiieagdlkVLEEEVDSvsnedstansSDNEdhqid 414
Cdd:COG5149   183 SEWDGERMRRRDGKQGIHQYERLSEGPAHAFKGKP-TTAKDE-----------GMFSDLDD----------SDVD----- 235

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1958783512 415 aleedplnSGDDVSEQDAPDlfdtDNVIVCQYDKIHRSKNRWKFYLKDGVMCFGGRDYVFAKAIGEAEW 483
Cdd:COG5149   236 --------SGDSEIEGTKGS----TNCMLCLYDKVNMSKGKWKCTFKDGVVSINNIDYVFNKAQGELEW 292
 
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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