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Conserved domains on  [gi|301601620|ref|NP_001180416|]
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TFIIA-alpha and beta-like factor isoform 2 [Homo sapiens]

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 ...
 8-444 2.40e-69

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: 223.45  E-value: 2.40e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620    8 LWETKVLQSKATE---DFFRNSIQSPLFTlqlphslhqtlqsstaslvipagrtlpsfttaelgtsnssanftfpgypIH 84
Cdd:pfam03153  33 LWQSKLSQSKVAEfpwDPKPEPPHPPPFV-------------------------------------------------IK 63

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620   85 VPAGVTLQTVSGHLYKVNVPimvTETSGRAGILQHPIQQVfqqlgQPSVIQTSVPQLNP---WSLQATTEKSQRI----- 156
Cdd:pfam03153  64 QEPGVTLQPASGPQAQLYKN---VQAQGAAQRAAQPLQQQ-----QGSAAQSSINALQAgasQQQQALALPQQQPqpqqq 135

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620  157 --ETVLQQPAILPSGP-VDRKHLEnatsdilvspgnehkivPEALLCHQESSHyislpgvvfSPQVSQTNSNVESVLSGS 233
Cdd:pfam03153 136 qqQQQQQQQQQQQQQQqQQQQQQE-----------------QAQQAPQQGGLN---------NSQTDGADDALEDWEGVL 189

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620  234 ASMAQNLHDESLSTS-PHGALHQHVTDIQLHI-----------LKNRMYGCDSVKQPRNIEEpsnipvsekdsnsqvdls 301
Cdd:pfam03153 190 AQRRAAGAPEELGRVeIDRMLREQIAARAKQMggglmlplkeaLKGKSRAKKSRKAPRATAE------------------ 251

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620  302 irvtdddigeIIQVDGSGDTSSNEEigstrdadeneflgnidggdlkvpeeeadsISNEDSatnssdnedpqvnivEEDP 381
Cdd:pfam03153 252 ----------IAQLDGAGDDSDDEE------------------------------SSNEDD---------------DEDA 276

                         410       420       430       440       450       460
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 301601620  382 LNSG-DDVSEQDVPDLFDTDN----VIVCQYDKIHRSKNKWKFYLKDGVMCFGGRDYVFAKAIGDAEW 444
Cdd:pfam03153 277 INSDlDDPDDDDDDDLEDTDNalghVMLCQYDKVQRVKNKWKCTLKDGVMTVNGKDYVFHKATGEFEW 344
 
Name Accession Description Interval E-value
TFIIA pfam03153
Transcription factor IIA, alpha/beta subunit; Transcription initiation factor IIA (TFIIA) is a ...
 8-444 2.40e-69

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: 223.45  E-value: 2.40e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620    8 LWETKVLQSKATE---DFFRNSIQSPLFTlqlphslhqtlqsstaslvipagrtlpsfttaelgtsnssanftfpgypIH 84
Cdd:pfam03153  33 LWQSKLSQSKVAEfpwDPKPEPPHPPPFV-------------------------------------------------IK 63

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620   85 VPAGVTLQTVSGHLYKVNVPimvTETSGRAGILQHPIQQVfqqlgQPSVIQTSVPQLNP---WSLQATTEKSQRI----- 156
Cdd:pfam03153  64 QEPGVTLQPASGPQAQLYKN---VQAQGAAQRAAQPLQQQ-----QGSAAQSSINALQAgasQQQQALALPQQQPqpqqq 135

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620  157 --ETVLQQPAILPSGP-VDRKHLEnatsdilvspgnehkivPEALLCHQESSHyislpgvvfSPQVSQTNSNVESVLSGS 233
Cdd:pfam03153 136 qqQQQQQQQQQQQQQQqQQQQQQE-----------------QAQQAPQQGGLN---------NSQTDGADDALEDWEGVL 189

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620  234 ASMAQNLHDESLSTS-PHGALHQHVTDIQLHI-----------LKNRMYGCDSVKQPRNIEEpsnipvsekdsnsqvdls 301
Cdd:pfam03153 190 AQRRAAGAPEELGRVeIDRMLREQIAARAKQMggglmlplkeaLKGKSRAKKSRKAPRATAE------------------ 251

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620  302 irvtdddigeIIQVDGSGDTSSNEEigstrdadeneflgnidggdlkvpeeeadsISNEDSatnssdnedpqvnivEEDP 381
Cdd:pfam03153 252 ----------IAQLDGAGDDSDDEE------------------------------SSNEDD---------------DEDA 276

                         410       420       430       440       450       460
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 301601620  382 LNSG-DDVSEQDVPDLFDTDN----VIVCQYDKIHRSKNKWKFYLKDGVMCFGGRDYVFAKAIGDAEW 444
Cdd:pfam03153 277 INSDlDDPDDDDDDDLEDTDNalghVMLCQYDKVQRVKNKWKCTLKDGVMTVNGKDYVFHKATGEFEW 344
TFIIA_alpha_beta_like cd07976
Precursor of TFIIA alpha and beta subunits and similar proteins; Transcription factor II A ...
 387-444 1.19e-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: 108.38  E-value: 1.19e-28
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 301601620 387 DVSEQDVPDLFDTDNVIVCQYDKIHRSKNKWKFYLKDGVMCFGGRDYVFAKAIGDAEW 444
Cdd:cd07976   45 GAASFPWDPKPETENIVLCQYDKVTRVKNKWKCTLKDGIMTLNGKDYVFQKATGEFEW 102
TOA1 COG5149
Transcription initiation factor IIA, large chain [Transcription];
280-444 3.78e-15

Transcription initiation factor IIA, large chain [Transcription];


Pssm-ID: 227478 [Multi-domain]  Cd Length: 293  Bit Score: 75.48  E-value: 3.78e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620 280 NIEEPSNIPV-SEKDSNSQVDLSIRVTDDDIGEIIQVDGS----GDTSSNEEIGSTRDADENEFLGNIDGGDLKVPEEEA 354
Cdd:COG5149  135 KIYGDIIAEViSLPNRLEQVEDELSIGKSAITTLRNTDWRerliDDTQSEWDGERMRRRDGKQGIHQYERLSEGPAHAFK 214

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620 355 DSISNEDSATNSSDNEDPQVNiveedplnSGDDVSEQDVPDlfdtDNVIVCQYDKIHRSKNKWKFYLKDGVMCFGGRDYV 434
Cdd:COG5149  215 GKPTTAKDEGMFSDLDDSDVD--------SGDSEIEGTKGS----TNCMLCLYDKVNMSKGKWKCTFKDGVVSINNIDYV 282

                        170
                 ....*....|
gi 301601620 435 FAKAIGDAEW 444
Cdd:COG5149  283 FNKAQGELEW 292
 
Name Accession Description Interval E-value
TFIIA pfam03153
Transcription factor IIA, alpha/beta subunit; Transcription initiation factor IIA (TFIIA) is a ...
 8-444 2.40e-69

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: 223.45  E-value: 2.40e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620    8 LWETKVLQSKATE---DFFRNSIQSPLFTlqlphslhqtlqsstaslvipagrtlpsfttaelgtsnssanftfpgypIH 84
Cdd:pfam03153  33 LWQSKLSQSKVAEfpwDPKPEPPHPPPFV-------------------------------------------------IK 63

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620   85 VPAGVTLQTVSGHLYKVNVPimvTETSGRAGILQHPIQQVfqqlgQPSVIQTSVPQLNP---WSLQATTEKSQRI----- 156
Cdd:pfam03153  64 QEPGVTLQPASGPQAQLYKN---VQAQGAAQRAAQPLQQQ-----QGSAAQSSINALQAgasQQQQALALPQQQPqpqqq 135

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620  157 --ETVLQQPAILPSGP-VDRKHLEnatsdilvspgnehkivPEALLCHQESSHyislpgvvfSPQVSQTNSNVESVLSGS 233
Cdd:pfam03153 136 qqQQQQQQQQQQQQQQqQQQQQQE-----------------QAQQAPQQGGLN---------NSQTDGADDALEDWEGVL 189

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620  234 ASMAQNLHDESLSTS-PHGALHQHVTDIQLHI-----------LKNRMYGCDSVKQPRNIEEpsnipvsekdsnsqvdls 301
Cdd:pfam03153 190 AQRRAAGAPEELGRVeIDRMLREQIAARAKQMggglmlplkeaLKGKSRAKKSRKAPRATAE------------------ 251

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620  302 irvtdddigeIIQVDGSGDTSSNEEigstrdadeneflgnidggdlkvpeeeadsISNEDSatnssdnedpqvnivEEDP 381
Cdd:pfam03153 252 ----------IAQLDGAGDDSDDEE------------------------------SSNEDD---------------DEDA 276

                         410       420       430       440       450       460
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 301601620  382 LNSG-DDVSEQDVPDLFDTDN----VIVCQYDKIHRSKNKWKFYLKDGVMCFGGRDYVFAKAIGDAEW 444
Cdd:pfam03153 277 INSDlDDPDDDDDDDLEDTDNalghVMLCQYDKVQRVKNKWKCTLKDGVMTVNGKDYVFHKATGEFEW 344
TFIIA_alpha_beta_like cd07976
Precursor of TFIIA alpha and beta subunits and similar proteins; Transcription factor II A ...
 387-444 1.19e-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: 108.38  E-value: 1.19e-28
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 301601620 387 DVSEQDVPDLFDTDNVIVCQYDKIHRSKNKWKFYLKDGVMCFGGRDYVFAKAIGDAEW 444
Cdd:cd07976   45 GAASFPWDPKPETENIVLCQYDKVTRVKNKWKCTLKDGIMTLNGKDYVFQKATGEFEW 102
TOA1 COG5149
Transcription initiation factor IIA, large chain [Transcription];
280-444 3.78e-15

Transcription initiation factor IIA, large chain [Transcription];


Pssm-ID: 227478 [Multi-domain]  Cd Length: 293  Bit Score: 75.48  E-value: 3.78e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620 280 NIEEPSNIPV-SEKDSNSQVDLSIRVTDDDIGEIIQVDGS----GDTSSNEEIGSTRDADENEFLGNIDGGDLKVPEEEA 354
Cdd:COG5149  135 KIYGDIIAEViSLPNRLEQVEDELSIGKSAITTLRNTDWRerliDDTQSEWDGERMRRRDGKQGIHQYERLSEGPAHAFK 214

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 301601620 355 DSISNEDSATNSSDNEDPQVNiveedplnSGDDVSEQDVPDlfdtDNVIVCQYDKIHRSKNKWKFYLKDGVMCFGGRDYV 434
Cdd:COG5149  215 GKPTTAKDEGMFSDLDDSDVD--------SGDSEIEGTKGS----TNCMLCLYDKVNMSKGKWKCTFKDGVVSINNIDYV 282

                        170
                 ....*....|
gi 301601620 435 FAKAIGDAEW 444
Cdd:COG5149  283 FNKAQGELEW 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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