NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|42476101|ref|NP_963889|]
View 

transcription initiation factor IIA subunit 1 isoform 2 [Homo sapiens]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
TFIIA super family cl37688
Transcription factor IIA, alpha/beta subunit; Transcription initiation factor IIA (TFIIA) is a ...
 1-337 1.25e-40

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.


The actual alignment was detected with superfamily member pfam03153:

Pssm-ID: 460829 [Multi-domain]  Cd Length: 344  Bit Score: 145.26  E-value: 1.25e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42476101     1 MELKTLWENKLMQSRAVD---GFHSEEQQLLLQVQQQHQPQQQQHHHHHHHQQAQPQQTvPQQAQTQQVLIPASQQATAP 77
Cdd:pfam03153  28 EELKQLWQSKLSQSKVAEfpwDPKPEPPHPPPFVIKQEPGVTLQPASGPQAQLYKNVQA-QGAAQRAAQPLQQQQGSAAQ 106

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42476101    78 QVIVPdskliqhMNASNMSAAATAATLALPAGVTPVQQILTNSGQLLQVVRAANGAQYIFQPQQSVVLQQQVIPQMQPGG 157
Cdd:pfam03153 107 SSINA-------LQAGASQQQQALALPQQQPQPQQQQQQQQQQQQQQQQQQQQQQQQQQEQAQQAPQQGGLNNSQTDGAD 179

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42476101   158 VQAPVIQQVLAPLPGGISPQTGVIIQPQQILFTGNKTQVIPTTVAAPTPAQAQITATGQQQPQAQPAQTQAPlVLQVDGT 237
Cdd:pfam03153 180 DALEDWEGVLAQRRAAGAPEELGRVEIDRMLREQIAARAKQMGGGLMLPLKEALKGKSRAKKSRKAPRATAE-IAQLDGA 258

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42476101   238 GDTSSEEDEdeeedydddeeedkekdgaEDGQVEEEPLNSE-DDVSDEEGQELFDTEN----VVVCQYDKIHRSKNKWKF 312
Cdd:pfam03153 259 GDDSDDEES-------------------SNEDDDEDAINSDlDDPDDDDDDDLEDTDNalghVMLCQYDKVQRVKNKWKC 319

                         330       340
                  ....*....|....*....|....*
gi 42476101   313 HLKDGIMNLNGRDYIFSKAIGDAEW 337
Cdd:pfam03153 320 TLKDGVMTVNGKDYVFHKATGEFEW 344
 
Name Accession Description Interval E-value
TFIIA pfam03153
Transcription factor IIA, alpha/beta subunit; Transcription initiation factor IIA (TFIIA) is a ...
 1-337 1.25e-40

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: 145.26  E-value: 1.25e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42476101     1 MELKTLWENKLMQSRAVD---GFHSEEQQLLLQVQQQHQPQQQQHHHHHHHQQAQPQQTvPQQAQTQQVLIPASQQATAP 77
Cdd:pfam03153  28 EELKQLWQSKLSQSKVAEfpwDPKPEPPHPPPFVIKQEPGVTLQPASGPQAQLYKNVQA-QGAAQRAAQPLQQQQGSAAQ 106

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42476101    78 QVIVPdskliqhMNASNMSAAATAATLALPAGVTPVQQILTNSGQLLQVVRAANGAQYIFQPQQSVVLQQQVIPQMQPGG 157
Cdd:pfam03153 107 SSINA-------LQAGASQQQQALALPQQQPQPQQQQQQQQQQQQQQQQQQQQQQQQQQEQAQQAPQQGGLNNSQTDGAD 179

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42476101   158 VQAPVIQQVLAPLPGGISPQTGVIIQPQQILFTGNKTQVIPTTVAAPTPAQAQITATGQQQPQAQPAQTQAPlVLQVDGT 237
Cdd:pfam03153 180 DALEDWEGVLAQRRAAGAPEELGRVEIDRMLREQIAARAKQMGGGLMLPLKEALKGKSRAKKSRKAPRATAE-IAQLDGA 258

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42476101   238 GDTSSEEDEdeeedydddeeedkekdgaEDGQVEEEPLNSE-DDVSDEEGQELFDTEN----VVVCQYDKIHRSKNKWKF 312
Cdd:pfam03153 259 GDDSDDEES-------------------SNEDDDEDAINSDlDDPDDDDDDDLEDTDNalghVMLCQYDKVQRVKNKWKC 319

                         330       340
                  ....*....|....*....|....*
gi 42476101   313 HLKDGIMNLNGRDYIFSKAIGDAEW 337
Cdd:pfam03153 320 TLKDGVMTVNGKDYVFHKATGEFEW 344
TFIIA_alpha_beta_like cd07976
Precursor of TFIIA alpha and beta subunits and similar proteins; Transcription factor II A ...
 277-337 7.20e-31

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: 112.23  E-value: 7.20e-31
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 42476101 277 SEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW 337
Cdd:cd07976  42 SQSGAASFPWDPKPETENIVLCQYDKVTRVKNKWKCTLKDGIMTLNGKDYVFQKATGEFEW 102
TOA1 COG5149
Transcription initiation factor IIA, large chain [Transcription];
265-337 1.18e-15

Transcription initiation factor IIA, large chain [Transcription];


Pssm-ID: 227478 [Multi-domain]  Cd Length: 293  Bit Score: 76.25  E-value: 1.18e-15
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 42476101 265 AEDGQVEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW 337
Cdd:COG5149 220 AKDEGMFSDLDDSDVDSGDSEIEGTKGSTNCMLCLYDKVNMSKGKWKCTFKDGVVSINNIDYVFNKAQGELEW 292
 
Name Accession Description Interval E-value
TFIIA pfam03153
Transcription factor IIA, alpha/beta subunit; Transcription initiation factor IIA (TFIIA) is a ...
 1-337 1.25e-40

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: 145.26  E-value: 1.25e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42476101     1 MELKTLWENKLMQSRAVD---GFHSEEQQLLLQVQQQHQPQQQQHHHHHHHQQAQPQQTvPQQAQTQQVLIPASQQATAP 77
Cdd:pfam03153  28 EELKQLWQSKLSQSKVAEfpwDPKPEPPHPPPFVIKQEPGVTLQPASGPQAQLYKNVQA-QGAAQRAAQPLQQQQGSAAQ 106

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42476101    78 QVIVPdskliqhMNASNMSAAATAATLALPAGVTPVQQILTNSGQLLQVVRAANGAQYIFQPQQSVVLQQQVIPQMQPGG 157
Cdd:pfam03153 107 SSINA-------LQAGASQQQQALALPQQQPQPQQQQQQQQQQQQQQQQQQQQQQQQQQEQAQQAPQQGGLNNSQTDGAD 179

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42476101   158 VQAPVIQQVLAPLPGGISPQTGVIIQPQQILFTGNKTQVIPTTVAAPTPAQAQITATGQQQPQAQPAQTQAPlVLQVDGT 237
Cdd:pfam03153 180 DALEDWEGVLAQRRAAGAPEELGRVEIDRMLREQIAARAKQMGGGLMLPLKEALKGKSRAKKSRKAPRATAE-IAQLDGA 258

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42476101   238 GDTSSEEDEdeeedydddeeedkekdgaEDGQVEEEPLNSE-DDVSDEEGQELFDTEN----VVVCQYDKIHRSKNKWKF 312
Cdd:pfam03153 259 GDDSDDEES-------------------SNEDDDEDAINSDlDDPDDDDDDDLEDTDNalghVMLCQYDKVQRVKNKWKC 319

                         330       340
                  ....*....|....*....|....*
gi 42476101   313 HLKDGIMNLNGRDYIFSKAIGDAEW 337
Cdd:pfam03153 320 TLKDGVMTVNGKDYVFHKATGEFEW 344
TFIIA_alpha_beta_like cd07976
Precursor of TFIIA alpha and beta subunits and similar proteins; Transcription factor II A ...
 277-337 7.20e-31

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: 112.23  E-value: 7.20e-31
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 42476101 277 SEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW 337
Cdd:cd07976  42 SQSGAASFPWDPKPETENIVLCQYDKVTRVKNKWKCTLKDGIMTLNGKDYVFQKATGEFEW 102
TOA1 COG5149
Transcription initiation factor IIA, large chain [Transcription];
265-337 1.18e-15

Transcription initiation factor IIA, large chain [Transcription];


Pssm-ID: 227478 [Multi-domain]  Cd Length: 293  Bit Score: 76.25  E-value: 1.18e-15
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 42476101 265 AEDGQVEEEPLNSEDDVSDEEGQELFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW 337
Cdd:COG5149 220 AKDEGMFSDLDDSDVDSGDSEIEGTKGSTNCMLCLYDKVNMSKGKWKCTFKDGVVSINNIDYVFNKAQGELEW 292
TFIIA_alpha_beta_like cd07976
Precursor of TFIIA alpha and beta subunits and similar proteins; Transcription factor II A ...
 2-21 5.60e-03

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: 35.96  E-value: 5.60e-03
                        10        20
                ....*....|....*....|
gi 42476101   2 ELKTLWENKLMQSRAVDGFH 21
Cdd:cd07976  32 ELKQLWEEKLSQSGAASFPW 51
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH