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Conserved domains on  [gi|334185929|ref|NP_190795|]
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Transcription initiation factor IIF, beta subunit [Arabidopsis thaliana]

Protein Classification

general transcription factor IIF subunit 2( domain architecture ID 3765)

general transcription factor IIF subunit 2 (GTF2F2) is a subunit of TFIIF, which is a general transcription initiation factor that binds to RNA polymerase II and helps to recruit it to the initiation complex in collaboration with TFIIB

Gene Ontology:  GO:0006366|GO:0006367|GO:0005674

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TFIIF_beta super family cl02122
Transcription initiation factor IIF, beta subunit; The TFIIF-beta subunit, also called RNA ...
 91-269 1.45e-19

Transcription initiation factor IIF, beta subunit; The TFIIF-beta subunit, also called RNA Polymerase II-associating Protein 30 (RAP30), forms a heteromeric complex of RAP30/74 (TFIIF, beta/gamma) that is involved in both initiation and elongation of RNA chains by RNA polymerase II. Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. TFIIF-beta binds directly to RNA polymerase II and helps bring polymerase into a pre-initiation complex.


The actual alignment was detected with superfamily member COG5090:

Pssm-ID: 445677 [Multi-domain]  Cd Length: 297  Bit Score: 85.79  E-value: 1.45e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185929  91 DSGNMPRRYTLDMSKDFIPMN-VFCE----SSDGKMSVEGKIKNKFDMRPhnENIESYGRLCRERTNKYMGKNRQIQVID 165
Cdd:COG5090   76 CNGGFPSSYDLKIKPKDVNNYyVFREsetsTHEKNTAVVGTVNHECYVTP--EVNDEYLRYKQDRGFKSDSKKSDVQVID 153

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185929 166 NARGMHMRP-MPGMIIPTAAPEKKKLTNRTSEMKRTRRDRREMEEVMFNLFERQSNWTLRLLIQETDQPEQFLKDLLKDL 244
Cdd:COG5090  154 YLKGGKRGEkFGSLRSSTLEFLARKRKKMLMDKKRERLPKNEVLDMLFKAFEKYPYWTLKGLAEFCGQPEAFLKEILDDI 233

                        170       180
                 ....*....|....*....|....*
gi 334185929 245 CIYNNKGSNQGTYELKPEYKKATQE 269
Cdd:COG5090  234 AVLNKKGPYANKYELRPEYKQTMDE 258
TFIIF_beta super family cl02122
Transcription initiation factor IIF, beta subunit; The TFIIF-beta subunit, also called RNA ...
 23-135 9.72e-07

Transcription initiation factor IIF, beta subunit; The TFIIF-beta subunit, also called RNA Polymerase II-associating Protein 30 (RAP30), forms a heteromeric complex of RAP30/74 (TFIIF, beta/gamma) that is involved in both initiation and elongation of RNA chains by RNA polymerase II. Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. TFIIF-beta binds directly to RNA polymerase II and helps bring polymerase into a pre-initiation complex.


The actual alignment was detected with superfamily member cd07980:

Pssm-ID: 445677  Cd Length: 123  Bit Score: 46.94  E-value: 9.72e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185929  23 LETGLAERSMLLMKAPSLVASSLQSHSfpddpyrpdDPYRPDAKVILGVDPLaheDEGTQFVMEL--ARADSGNMPRRYT 100
Cdd:cd07980    4 LDTSNADRSVWLVKVPKFLSERWSKLD---------DDGIELGTLRVYKDPP---SGKPRVSLTLpeNLPENANIPKEYE 71

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 334185929 101 LDMSKD-FIPMNVFCESSD----------------GKMSVEGKIKNKFDMRP 135
Cdd:cd07980   72 LDMTNEsVQNTYVFSEKDLpgfkarsqpyyrksipKKTALEGRVVHECDCRP 123
 
Name Accession Description Interval E-value
TFG2 COG5090
Transcription initiation factor IIF, small subunit (RAP30) [Transcription];
91-269 1.45e-19

Transcription initiation factor IIF, small subunit (RAP30) [Transcription];


Pssm-ID: 227421 [Multi-domain]  Cd Length: 297  Bit Score: 85.79  E-value: 1.45e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185929  91 DSGNMPRRYTLDMSKDFIPMN-VFCE----SSDGKMSVEGKIKNKFDMRPhnENIESYGRLCRERTNKYMGKNRQIQVID 165
Cdd:COG5090   76 CNGGFPSSYDLKIKPKDVNNYyVFREsetsTHEKNTAVVGTVNHECYVTP--EVNDEYLRYKQDRGFKSDSKKSDVQVID 153

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185929 166 NARGMHMRP-MPGMIIPTAAPEKKKLTNRTSEMKRTRRDRREMEEVMFNLFERQSNWTLRLLIQETDQPEQFLKDLLKDL 244
Cdd:COG5090  154 YLKGGKRGEkFGSLRSSTLEFLARKRKKMLMDKKRERLPKNEVLDMLFKAFEKYPYWTLKGLAEFCGQPEAFLKEILDDI 233

                        170       180
                 ....*....|....*....|....*
gi 334185929 245 CIYNNKGSNQGTYELKPEYKKATQE 269
Cdd:COG5090  234 AVLNKKGPYANKYELRPEYKQTMDE 258
TFIIF_beta pfam02270
TFIIF, beta subunit HTH domain; Accurate transcription in vivo requires at least six general ...
 200-264 2.26e-17

TFIIF, beta subunit HTH domain; Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIF (TFIIF) is a tetramer of two beta subunits associate with two alpha subunits which interacts directly with RNA polymerase II. The beta subunit of TFIIF is required for recruitment of RNA polymerase II onto the promoter.


Pssm-ID: 426691  Cd Length: 65  Bit Score: 74.19  E-value: 2.26e-17
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 334185929  200 TRRDRREMEEVMFNLFERQSNWTLRLLIQETDQPEQFLKDLLKDLCIYNNKGSNQGTYELKPEYK 264
Cdd:pfam02270   1 ARMPRNELLDALFSLFEEHQYWSLKDLRERTRQPEAYLKETLEEIAVLNRSGPFAGMWELKPEYR 65
TFIIF_beta cd07980
Transcription initiation factor IIF, beta subunit; The TFIIF-beta subunit, also called RNA ...
 23-135 9.72e-07

Transcription initiation factor IIF, beta subunit; The TFIIF-beta subunit, also called RNA Polymerase II-associating Protein 30 (RAP30), forms a heteromeric complex of RAP30/74 (TFIIF, beta/gamma) that is involved in both initiation and elongation of RNA chains by RNA polymerase II. Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. TFIIF-beta binds directly to RNA polymerase II and helps bring polymerase into a pre-initiation complex.


Pssm-ID: 259828  Cd Length: 123  Bit Score: 46.94  E-value: 9.72e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185929  23 LETGLAERSMLLMKAPSLVASSLQSHSfpddpyrpdDPYRPDAKVILGVDPLaheDEGTQFVMEL--ARADSGNMPRRYT 100
Cdd:cd07980    4 LDTSNADRSVWLVKVPKFLSERWSKLD---------DDGIELGTLRVYKDPP---SGKPRVSLTLpeNLPENANIPKEYE 71

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 334185929 101 LDMSKD-FIPMNVFCESSD----------------GKMSVEGKIKNKFDMRP 135
Cdd:cd07980   72 LDMTNEsVQNTYVFSEKDLpgfkarsqpyyrksipKKTALEGRVVHECDCRP 123
 
Name Accession Description Interval E-value
TFG2 COG5090
Transcription initiation factor IIF, small subunit (RAP30) [Transcription];
91-269 1.45e-19

Transcription initiation factor IIF, small subunit (RAP30) [Transcription];


Pssm-ID: 227421 [Multi-domain]  Cd Length: 297  Bit Score: 85.79  E-value: 1.45e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185929  91 DSGNMPRRYTLDMSKDFIPMN-VFCE----SSDGKMSVEGKIKNKFDMRPhnENIESYGRLCRERTNKYMGKNRQIQVID 165
Cdd:COG5090   76 CNGGFPSSYDLKIKPKDVNNYyVFREsetsTHEKNTAVVGTVNHECYVTP--EVNDEYLRYKQDRGFKSDSKKSDVQVID 153

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185929 166 NARGMHMRP-MPGMIIPTAAPEKKKLTNRTSEMKRTRRDRREMEEVMFNLFERQSNWTLRLLIQETDQPEQFLKDLLKDL 244
Cdd:COG5090  154 YLKGGKRGEkFGSLRSSTLEFLARKRKKMLMDKKRERLPKNEVLDMLFKAFEKYPYWTLKGLAEFCGQPEAFLKEILDDI 233

                        170       180
                 ....*....|....*....|....*
gi 334185929 245 CIYNNKGSNQGTYELKPEYKKATQE 269
Cdd:COG5090  234 AVLNKKGPYANKYELRPEYKQTMDE 258
TFIIF_beta pfam02270
TFIIF, beta subunit HTH domain; Accurate transcription in vivo requires at least six general ...
 200-264 2.26e-17

TFIIF, beta subunit HTH domain; Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. Transcription initiation factor IIF (TFIIF) is a tetramer of two beta subunits associate with two alpha subunits which interacts directly with RNA polymerase II. The beta subunit of TFIIF is required for recruitment of RNA polymerase II onto the promoter.


Pssm-ID: 426691  Cd Length: 65  Bit Score: 74.19  E-value: 2.26e-17
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 334185929  200 TRRDRREMEEVMFNLFERQSNWTLRLLIQETDQPEQFLKDLLKDLCIYNNKGSNQGTYELKPEYK 264
Cdd:pfam02270   1 ARMPRNELLDALFSLFEEHQYWSLKDLRERTRQPEAYLKETLEEIAVLNRSGPFAGMWELKPEYR 65
TFIIF_beta cd07980
Transcription initiation factor IIF, beta subunit; The TFIIF-beta subunit, also called RNA ...
 23-135 9.72e-07

Transcription initiation factor IIF, beta subunit; The TFIIF-beta subunit, also called RNA Polymerase II-associating Protein 30 (RAP30), forms a heteromeric complex of RAP30/74 (TFIIF, beta/gamma) that is involved in both initiation and elongation of RNA chains by RNA polymerase II. Accurate transcription in vivo requires at least six general transcription initiation factors, in addition to RNA polymerase II. TFIIF-beta binds directly to RNA polymerase II and helps bring polymerase into a pre-initiation complex.


Pssm-ID: 259828  Cd Length: 123  Bit Score: 46.94  E-value: 9.72e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185929  23 LETGLAERSMLLMKAPSLVASSLQSHSfpddpyrpdDPYRPDAKVILGVDPLaheDEGTQFVMEL--ARADSGNMPRRYT 100
Cdd:cd07980    4 LDTSNADRSVWLVKVPKFLSERWSKLD---------DDGIELGTLRVYKDPP---SGKPRVSLTLpeNLPENANIPKEYE 71

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 334185929 101 LDMSKD-FIPMNVFCESSD----------------GKMSVEGKIKNKFDMRP 135
Cdd:cd07980   72 LDMTNEsVQNTYVFSEKDLpgfkarsqpyyrksipKKTALEGRVVHECDCRP 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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