Conserved Protein Domain Family
TFIIA

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pfam03153: TFIIA (This model is not part of the current CDD release)
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.
Statistics
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PSSM-Id: 515416
Aligned: 51 rows
Threshold Bit Score: 145.268
Created: 13-Feb-2025
Updated: 28-Apr-2025
Structure
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Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
XP_014345874  13 LYRSIIEDVIDGVQELFVEEGIDDQVLKELKQRWESKVIHSKAME---GFFRDHSHSPQFVLQlpqnyhpalqksadsiv 89 
XP_002000938  11 VYHAVIEDVINNVRDAFLDEGVDEQVLQEMKQIWRNKLLASKAVElnpEPGEPGHHPPPIVANnpkaanakakkaaaaaa 90 
EHA97280      30 LYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWESKLMQSRAVD---GFHSEEQQLLLQVQQqhqpqqqqhhhhhhhqq 106
9_pfamImport   1 LYRSVIEDVINDVRELFLDEGVDEQVLMELRTLWESKLMQSKAVE---GFHTPQVIIPPAQQVelnrqklklrvvhqnfi 77 
XP_005809981  13 LYRGVIEDVINEVRELFLDEGVDEQVLLELKTLWENKLLQSKAVE---GFHTDEQAALQATQQqqvqhvpqvqqvtqptq 89 
XP_003971552  13 LYKSVIDDVINEVRELFLDEGVDEQVLLELKTLWENKLLQSKAVE---GFHTEE-QTLQAAQQlqqiqqaqqaqqmaqpt 88 
XP_005449872  13 LYKNVIDDVISEVRELFLDEGVDEQVLLELKTLWENKLLQSKAVE---GFHTEEQTALQAAQQqqqqvqqvqqvqqvaqp 89 
4_pfamImport   1 LYLSIIDDVIESMRELFTDEGLEDRVLDDLRQIWESKMMQSKAME---DYRKSNINSSNFVLQlpanynrtnqeltasvv 77 
Q8R4I4        10 LYQSVIEDVIEGVRDLFAEEGIEEQVLKDLKKLWETKVLQSKATE---DFFRNSTQVPLLTLQlphalppalqpeaslli 86  house mouse
5_pfamImport   1 LYRSVIEDVIERVRNLFAEEGIEEQVLKDLKQLWETKILQSKATD---DFFRNSIHSPLFTLQlphglhqtlqtsaaplv 77 
XP_014345874  90 ipasksvqsyttadltcndg----------------------------------ytyervdgskffrvkrdcqnwrsati 135
XP_002000938  91 asqqsngggttagtvtnstdnsklatpsiagksgnaitaagsgmkngigsikqevtsqnppplhptggstmlqkqqaagg 170
EHA97280     107 aqpqqtvpqqaqtqqvlip------------------------------------asqqatapqvivpdskliqhmnasn 150
9_pfamImport  78 ffsfdvapqqq-----------------------------------------------------vivqdskllqhmnatg 104
XP_005809981  90 aqqvilppqqqqat-----------------------------------------------pqqvivqdpkilqhmsatg 122
XP_003971552  89 qaqqvilppqpqqqa---------------------------------------------pqqqvivqdskilqhmsatg 123
XP_005449872  90 aqtqqvilppqqqqa---------------------------------------------pqqqvivqeskliqhmggtg 124
4_pfamImport  78 ipasq-----------------------------------------------------------------nirsfpmkem 92 
Q8R4I4        87 pagr-------------------------------------------------------------------tlpsftped 99  house mouse
5_pfamImport  78 ippgr----------------------------------------------------------------tipsfttaeli 93 
XP_014345874 136 ksssgtnttftLPAGISYpvq--ipaGVTLQTASG------HLYKVnvpvmvTQAPGGSRMFQQPIPQMfqqls------ 201
XP_002000938 171 gsttagqtpipIVAQLDPnri--mpvNITLPSPPGstnpesRVLTIqvpasaLQENQLTQILTAHLISSimslp------ 242
EHA97280     151 msaaataatlaLPAGVTPvqqiltnsGQLLQVVR-------------------AANGAQYIF-QPQQSVvlqqqvipqmq 210
9_pfamImport 105 msaaataatlaLPTGVSPyqqlitnqGQILQVVR-------------------APNGAQYLI-QPQQQVvlqqqvlpqmq 164
XP_005809981 123 msaaataatlaLPTGVTPyqqiitsqGQILQVVR-------------------APNGTQYIIQQSQQPIvlqqpm----q 179
XP_003971552 124 msaaataatlaLPAGVTPlhqlltsqGQLLQVVR-------------------APNGTQYIIQQPQQQIllqqqm----q 180
XP_005449872 125 msaaataatlaLPTAVTQyqqlitsqGQILQVVR-------------------APNGAQYII-QPQQQIllqqqm----q 180
4_pfamImport  93 qnnsgilptfsLPAGLSYpvq--ipaGVTLQTASG------QLYKVnvpvvvTQAPAGQPPVSRLAQVIer--------- 155
Q8R4I4       100 lntancganfaFA---GYpih--vpaGMAFQTASG------HLYKVnvpvmvTQTSGRTEILQHPFQQVlqq-------- 160 house mouse
5_pfamImport  94 qgtsnssanftFPSGIGYpih--vpaGVTLRTASG------HLYKVnvpiivTQTPGRASILQHPVQQIfqq-------- 157
XP_014345874 202 hsagQSAAIQSSTVPVQ----RALQQQAESLHQpisgqdldkhvmlgqstqsdkttsqsaIHqPI-LIQQPVVLNQVFIQ 276
XP_002000938 243 ttlaSSVLQQHVNAALNnanhQKNLAISK--------------------------------------------------- 271
EHA97280     211 pggvQAPVIQQVLAPLPggisPQTGVIIQPQQIlf------------------------tGNkTQ------------VIP 254
9_pfamImport 165 psgvQAPVIQQVLTPLPggipQQTGVIIQPQQIviag--------------------nkvPQnAQ------------VMQ 212
XP_005809981 180 pggvQAPVIQQVLAPLQgglpQQTGVIIQPQQIvlas-------------------gnkvQGnTQ------------VVQ 228
XP_003971552 181 pagvQAPVIQQVLTPLQgalpQQTGVIIQPQQIvl------------------------aSGnKV-QGNTQLLQASAAIE 235
XP_005449872 181 pggvQAPVIQQVLAPLPgglsQQAGVIIQPQQIvl---------------------------tPGnKVQGNTQVMQAAAM 233
4_pfamImport 156 ---rESPDPPSTAAPPDasrpPQ---EAEALSApa---------------------------------iSPPPPHPKTNF 196
Q8R4I4       161 --lgQPLVIQTTVPTLHp---CSLQAATEKSLRm-----------------------------eA-VLQPPPILHPPPVD 205 house mouse
5_pfamImport 158 --lgQPPVIQMSLPQLS----SSPHTTTEKPQGl-----------------------------eP-VFQQPTVLHPGTVD 201
XP_014345874 277 QNERSknhpnesvetpaisqqsEIQQESNVitsqssglhsvlqePVATSPYPVVQQE---ESDGIeevillddEGEKSIT 353
XP_002000938     --------------------------------------------------------------------------------    
EHA97280     255 TTVAAp----------------TAAQAQIT------------------AAGQQQPQA---QPTQQqa------------- 284
9_pfamImport 213 AAPMAa----------------PAGQSTAQ------------------VPPQQQQQQ---QQQPAqp------------- 242
XP_005809981 229 TATMVqqtg---------qmavAAAAAGGAaavqvq----qaqgaAAPQAPPQAQQQsqpQPQAQqp------------- 282
XP_003971552 236 QQTGQ-----------------VAAAQVQQlpqis-----gaaaPQAPQQQQPQAQP---QPQAQqp------------- 277
XP_005449872 234 APQPS-----------------QAATAAQV---------------QQV--QQAQGAT---APQASa-------QPQAQQQ 269
4_pfamImport 197 PPGEEsal-----------pqqPLVPPAEAsqppgahfpqpeapPGESEPNPPPEPA---TLCASaspcsqllDFQISTE 262
Q8R4I4       206 RTHVEnaasd--------rrllPGNELRPQesspylslpgvgfpP-QA-ALTESSLE---PVLGVsasltqnlHSDPFSQ 272 house mouse
5_pfamImport 202 RKHVEnvttdv------fvppgNEHKIIQQespqyvnlpgvvfaP-QV-SQLDSNVE---SALSVsttvtqnlHGRPYSA 270
XP_014345874 354 NEQTCpKQNASE-----Llkmqlltpeasnr----------------------tlnedshnddqdIIQVDGIYDTSSDee 406
XP_002000938 272 -------------------------------------------------------------------QLDGALDSSEEde 284
EHA97280     285 ---------------------------------------------------------------plVLQVDGTGDTSSEed 301
9_pfamImport 243 ---------------------------------------------------------------pmMLQVDGAGDTSSEed 259
XP_005809981 283 ---------------------------------------------------------------pmMLQVDGAGDTSSEed 299
XP_003971552 278 ---------------------------------------------------------------pmMLQVDGTGDTSSDde 294
XP_005449872 270 QQAQPqAQAQPQaqqppM-----------------------------------------------MLQVDGTGDTSSEed 302
4_pfamImport 263 E-ALTqTGQLRTndlddIlkevieeergkavmarktvnq-----sdadlgvikldlaynyselsdIVQLDGAAGNSDMee 336
Q8R4I4       273 GPPGPlHHHLLEsq-lqSlkdsiygcdstkqlrkaeepsslrvseknctserdlnirvtdddineIIQIDGTGDNSSTee 351 house mouse
5_pfamImport 271 GPRGAlHQHLPDvq-lrVlknrvygcdsvkqprnvqepss---lpvsektcgserdmnfeitlffLISFLVSQKNTTNnk 346
XP_014345874 407 avneqdvneneflg------iidaedlkaleegisSSED--SAssnsedee---cqveiveEDPLNSGDDVSE--QDVPD 473
XP_002000938 285 see----------------------------sddnIDND--DDddldkdedddaehedaaeEEPLNSEDDVTD--EDSAE 332
EHA97280     302 e-------------------------------deeEDYDddEEedkekdg----aedgqveEEPLNSEDDVSD--EEGQE 344
9_pfamImport 260 e-------------------------------eeeDEYDedEEedkdkdg----gedgqveEEPLNSGDDVSD--EEGQE 302
XP_005809981 300 e-------------------------------deeEEYDedEEeekdkdg----gedgqveEEPLNSEDDVSE--DEDQE 342
XP_003971552 295 e-------------------------------deeEEYD--EEdeeerev----aedgqveEEPLNSEDDVSD--EEDQE 335
XP_005449872 303 e-------------------------------deeEYDEd-DDeekdkdg----aedgqveEEPLNSGDDVSD--EEDQE 344
4_pfamImport 337 eaavsledndflgi------inaeaikalqegggsSDCN--SIssssdeeaa-deltnvedEDPLNSGDDVVE--QDIPD 405
Q8R4I4       352 mgsirdadenefpg-----iidagdlnvleevdsvSNED--STanssdned---hqinapeEDPLNSGDDVSE--QDVPD 419 house mouse
5_pfamImport 347 kapvaidirecqtrategicevsdteikegnletlVNV---TVrkhsessq---fekksatEDAVEHGSTNSRgiADC-D 419
XP_014345874 474 lFDTDNVIVCQYDKIHRSKNKWKFYLKDGVMCFGGKDYVFSKAVGEAEW 522
XP_002000938 333 vFDTDNVIVCQYDKITRSRNKWKFYLKDGIMNMRGKDYVFQKSNGDAEW 381
EHA97280     345 lFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYIFSKAIGDAEW 393
9_pfamImport 303 lFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYVFSKAIGDAEW 351
XP_005809981 343 lFDTENVVVCQYDKIHRSKTKWKFHLKDGIMNLNGRDFVFSKATGDAEW 391
XP_003971552 336 lFDTENVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYVFSKAIGDAEW 384
XP_005449872 345 lFETDNVVVCQYDKIHRSKNKWKFHLKDGIMNLNGRDYVFSKAIGDAEW 393
4_pfamImport 406 lFDTDNVIVCQYDKIHRSKNRWKFHLKDGVICYGGRDYVFSKAVGEAEW 454
Q8R4I4       420 lFDTENVIVCQYDKIHRSKNRWKFYLKDGVMCFGGRDYVFAKAIGEAEW 468 house mouse
5_pfamImport 420 lSDSSYLCVCSYLKVHRNKNKWKFYLKDGVMCFGGKDYVFAKAVGDAEW 468
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