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Conserved domains on  [gi|767980344|ref|XP_011534974|]
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transcription factor IIIB 90 kDa subunit isoform X2 [Homo sapiens]

Protein Classification

transcription factor IIIB subunit( domain architecture ID 11444069)

transcription factor IIIB subunit is a component of TFIIIB complexes that act as general activators of RNA polymerase (RNAP) transcription; RNAP utilizes different TFIIIB complexes at structurally distinct promoters

Gene Ontology:  GO:0046872|GO:0000995|GO:0006383|GO:0017025
PubMed:  1949150

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CYCLIN_TFIIIB90_rpt2 cd20554
second cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar ...
 179-270 4.81e-60

second cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar proteins; TFIIIB90, also called B-related factor 1 (BRF-1), or TATA box-binding protein-associated factor, RNA polymerase III, subunit 2 (TAF3B2), is a general activator of RNA polymerase which utilizes different TFIIIB complexes at structurally distinct promoters. TFIIIB90 contains two cyclin boxes. This model corresponds to the second one. The cyclin box fold is generally a protein binding domain, but binds DNA in TFIIIB90.


:

Pssm-ID: 410257 [Multi-domain]  Cd Length: 92  Bit Score: 195.04  E-value: 4.81e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344 179 PAIDPCLYIPRFAHLLEFGEKNHEVSMTALRLLQRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKVCES 258
Cdd:cd20554    1 PVIDPSLYIHRFASKLEFGDKTHEVANTALRLVQRMKRDWIHTGRRPSGICGAALLIAARMHGFKRTVEEIVRVVRVCES 80

                         90
                 ....*....|..
gi 767980344 259 TLRKRLTEFEDT 270
Cdd:cd20554   81 TLRKRLREFEKT 92
CYCLIN_TFIIIB90_rpt1 cd20553
first cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar ...
 84-174 2.79e-55

first cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar proteins; TFIIIB90, also called B-related factor 1 (BRF-1), or TATA box-binding protein-associated factor, RNA polymerase III, subunit 2 (TAF3B2), is a general activator of RNA polymerase which utilizes different TFIIIB complexes at structurally distinct promoters. TFIIIB90 contains two cyclin boxes. This model corresponds to the first one. The cyclin box fold is generally a protein binding domain, but binds DNA in TFIIIB90.


:

Pssm-ID: 410256 [Multi-domain]  Cd Length: 91  Bit Score: 182.35  E-value: 2.79e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  84 QTLQNGRRHIHHLGNQLQLNQHCLDTAFNFFKMAVSRHLTRGRKMAHVIAACLYLVCRTEGTPHMLLDLSDLLQVNVYVL 163
Cdd:cd20553    1 ITLQNGRRKIQQLGSQLKLNQHHIDTAFRFYKLAVQRNFTRGRKTSHVAAACLYIVCRREKTPHMLIDFSDVLQVNVYVL 80

                         90
                 ....*....|.
gi 767980344 164 GKTFLLLAREL 174
Cdd:cd20553   81 GKTFLKLCKLL 91
BRF1 pfam07741
Brf1-like TBP-binding domain; In budding yeasts, Brf1 forms the TFIIIB complex with ...
 450-546 9.01e-39

Brf1-like TBP-binding domain; In budding yeasts, Brf1 forms the TFIIIB complex with TATA-binding protein (TBP) and Bdp1. The TFIIIB complex can be recruited to the Pol III promoters and form an exceptionally kinetically stable TFIIIB-DNA complex, which then recruits the Pol III enzymatic complex and helps maintain it for multiple transcription cycles in a process called facilitated recycling. This entry represents the TATA binding protein (TBP) binding domain of Brf1 that covers both the Brf homology II and III regions.


:

Pssm-ID: 462250 [Multi-domain]  Cd Length: 98  Bit Score: 138.08  E-value: 9.01e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  450 SGIDDLEIDRYILNESEARVKAELWMRENAEYLREQREKEARIAKEKELGIYKEHKPKKSCKRREPIQASTAREAIEKML 529
Cdd:pfam07741   1 SDLDDDELDNYILSEEEVKIKERIWVELNKDYLEEQAEKRLKAEAAEAAGKPKKKRKRKKKEKKNIGPASTAAEAAKNML 80

                          90
                  ....*....|....*..
gi 767980344  530 EQKKISSKINYSVLRGL 546
Cdd:pfam07741  81 KKKKFSKKINYDALKSL 97
TF_Zn_Ribbon pfam08271
TFIIB zinc-binding; The transcription factor TFIIB contains a zinc-binding motif near the ...
 4-45 2.49e-13

TFIIB zinc-binding; The transcription factor TFIIB contains a zinc-binding motif near the N-terminus. This domain is involved in the interaction with RNA pol II and TFIIF and plays a crucial role in selecting the transcription initiation site. The domain adopts a zinc ribbon like structure.


:

Pssm-ID: 400527 [Multi-domain]  Cd Length: 43  Bit Score: 64.25  E-value: 2.49e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 767980344    4 RVCRGCGGTDIELDAARGDAVCTACGSVLEDNIIVSEVQFVE 45
Cdd:pfam08271   1 YKCPNCGSTNLVEDYERGELVCTDCGLVLEDNSIDEGPEWRE 42
 
Name Accession Description Interval E-value
CYCLIN_TFIIIB90_rpt2 cd20554
second cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar ...
 179-270 4.81e-60

second cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar proteins; TFIIIB90, also called B-related factor 1 (BRF-1), or TATA box-binding protein-associated factor, RNA polymerase III, subunit 2 (TAF3B2), is a general activator of RNA polymerase which utilizes different TFIIIB complexes at structurally distinct promoters. TFIIIB90 contains two cyclin boxes. This model corresponds to the second one. The cyclin box fold is generally a protein binding domain, but binds DNA in TFIIIB90.


Pssm-ID: 410257 [Multi-domain]  Cd Length: 92  Bit Score: 195.04  E-value: 4.81e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344 179 PAIDPCLYIPRFAHLLEFGEKNHEVSMTALRLLQRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKVCES 258
Cdd:cd20554    1 PVIDPSLYIHRFASKLEFGDKTHEVANTALRLVQRMKRDWIHTGRRPSGICGAALLIAARMHGFKRTVEEIVRVVRVCES 80

                         90
                 ....*....|..
gi 767980344 259 TLRKRLTEFEDT 270
Cdd:cd20554   81 TLRKRLREFEKT 92
CYCLIN_TFIIIB90_rpt1 cd20553
first cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar ...
 84-174 2.79e-55

first cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar proteins; TFIIIB90, also called B-related factor 1 (BRF-1), or TATA box-binding protein-associated factor, RNA polymerase III, subunit 2 (TAF3B2), is a general activator of RNA polymerase which utilizes different TFIIIB complexes at structurally distinct promoters. TFIIIB90 contains two cyclin boxes. This model corresponds to the first one. The cyclin box fold is generally a protein binding domain, but binds DNA in TFIIIB90.


Pssm-ID: 410256 [Multi-domain]  Cd Length: 91  Bit Score: 182.35  E-value: 2.79e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  84 QTLQNGRRHIHHLGNQLQLNQHCLDTAFNFFKMAVSRHLTRGRKMAHVIAACLYLVCRTEGTPHMLLDLSDLLQVNVYVL 163
Cdd:cd20553    1 ITLQNGRRKIQQLGSQLKLNQHHIDTAFRFYKLAVQRNFTRGRKTSHVAAACLYIVCRREKTPHMLIDFSDVLQVNVYVL 80

                         90
                 ....*....|.
gi 767980344 164 GKTFLLLAREL 174
Cdd:cd20553   81 GKTFLKLCKLL 91
SUA7 COG1405
Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB ...
 4-266 2.42e-41

Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription];


Pssm-ID: 441015 [Multi-domain]  Cd Length: 309  Bit Score: 152.29  E-value: 2.42e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344   4 RVCRGCGGTDIELDAARGDAVCTACGSVLEDNII----------VSEVQFVESsgggssaVGQFVSL------------- 60
Cdd:COG1405   12 SVCPECGGENLVTDTERGETVCEDCGLVVEEDVIdrgpewrafdSEERDERSR-------TGAPLTLarhdkglsteigw 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  61 ---DGAGKTptLGGG--------------FHVnlgKESRAQTLQNGRRHIHHLGNQLQLNQHCLDTAFNFFKMAVSRHLT 123
Cdd:COG1405   85 qdkDAYGKS--LSGRkrrqlarlrkwqnrSRV---SSSKERNLVQALSEIDRLASALGLPDSVRETAAVIYRKAVEKGLL 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344 124 RGRKMAHVIAACLYLVCRTEGTPHMLLDLSDLLQVNVYVLGKTFLLLARELCINAPAIDPCLYIPRFAHLLEFGEknhEV 203
Cdd:COG1405  160 RGRSIEGVAAAALYAACRQAGVPRTLDEIAEVSRVDRKEIARAYRLLNRELGLKVPPIDPIEYIPRIASELGLSE---EV 236

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 767980344 204 SMTALRLLQRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKVCESTLRKRLTE 266
Cdd:COG1405  237 ERRAREILEKAKEKGLTSGKNPAGLAAAALYLAALLLGEKVTQKEVAEVAGVTEVTIRNRYKE 299
BRF1 pfam07741
Brf1-like TBP-binding domain; In budding yeasts, Brf1 forms the TFIIIB complex with ...
 450-546 9.01e-39

Brf1-like TBP-binding domain; In budding yeasts, Brf1 forms the TFIIIB complex with TATA-binding protein (TBP) and Bdp1. The TFIIIB complex can be recruited to the Pol III promoters and form an exceptionally kinetically stable TFIIIB-DNA complex, which then recruits the Pol III enzymatic complex and helps maintain it for multiple transcription cycles in a process called facilitated recycling. This entry represents the TATA binding protein (TBP) binding domain of Brf1 that covers both the Brf homology II and III regions.


Pssm-ID: 462250 [Multi-domain]  Cd Length: 98  Bit Score: 138.08  E-value: 9.01e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  450 SGIDDLEIDRYILNESEARVKAELWMRENAEYLREQREKEARIAKEKELGIYKEHKPKKSCKRREPIQASTAREAIEKML 529
Cdd:pfam07741   1 SDLDDDELDNYILSEEEVKIKERIWVELNKDYLEEQAEKRLKAEAAEAAGKPKKKRKRKKKEKKNIGPASTAAEAAKNML 80

                          90
                  ....*....|....*..
gi 767980344  530 EQKKISSKINYSVLRGL 546
Cdd:pfam07741  81 KKKKFSKKINYDALKSL 97
TFIIB pfam00382
Transcription factor TFIIB repeat;
82-173 3.28e-34

Transcription factor TFIIB repeat;


Pssm-ID: 425652 [Multi-domain]  Cd Length: 92  Bit Score: 125.06  E-value: 3.28e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344   82 RAQTLQNGRRHIHHLGNQLQLNQHCLDTAFNFFKMAVSRHLTRGRKMAHVIAACLYLVCRTEGTPHMLLDLSDLLQVNVY 161
Cdd:pfam00382   1 RDQTLIDARRFIPRFADALELPEKVADAAFEIAKLAVDDNLLKGRSPAGIAAACLYIACRLEGTKRTLKEISSVLQVTEY 80

                          90
                  ....*....|..
gi 767980344  162 VLGKTFLLLARE 173
Cdd:pfam00382  81 TIGKTFKELKKA 92
tfb PRK00423
transcription initiation factor IIB; Reviewed
 4-278 3.38e-34

transcription initiation factor IIB; Reviewed


Pssm-ID: 234758 [Multi-domain]  Cd Length: 310  Bit Score: 132.44  E-value: 3.38e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344   4 RVCRGCGGTDIELDAARGDAVCTACGSVLEDNIIVSEVQ---FVESSGGGSSAVGQFVSL----------------DGAG 64
Cdd:PRK00423  12 LVCPECGSDKLIYDYERGEIVCADCGLVIEENIIDQGPEwraFDPEQREKRSRVGAPMTYtihdkglstdidwrnkDSYG 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  65 KTPTLGGGFHV-NLGKESR------------AQTLQNGRRhihhLGNQLQLNQHCLDTAFNFFKMAVSRHLTRGRKMAHV 131
Cdd:PRK00423  92 KSISGKNRAQLyRLRKWQRrirvsnaaernlAFALSELDR----IASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGV 167

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344 132 IAACLYLVCRTEGTPHMLLDLSDLLQVNVYVLGKTFLLLARELCINAPAIDPCLYIPRFAHLLEFGEknhEVSMTALRLL 211
Cdd:PRK00423 168 VAAALYAACRRCKVPRTLDEIAEVSRVSRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSG---EVQKKAIEIL 244

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 767980344 212 QRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKVCESTLRKRLTEFedtpTSQLTID 278
Cdd:PRK00423 245 QKAKEKGLTSGKGPTGLAAAAIYIASLLLGERRTQREVAEVAGVTEVTVRNRYKEL----AEKLDIK 307
TFIIB pfam00382
Transcription factor TFIIB repeat;
176-270 5.78e-32

Transcription factor TFIIB repeat;


Pssm-ID: 425652 [Multi-domain]  Cd Length: 92  Bit Score: 118.90  E-value: 5.78e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  176 INAPAIDPCLYIPRFAHLLEFGEKnheVSMTALRLLQRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKV 255
Cdd:pfam00382   1 RDQTLIDARRFIPRFADALELPEK---VADAAFEIAKLAVDDNLLKGRSPAGIAAACLYIACRLEGTKRTLKEISSVLQV 77

                          90
                  ....*....|....*
gi 767980344  256 CESTLRKRLTEFEDT 270
Cdd:pfam00382  78 TEYTIGKTFKELKKA 92
TF_Zn_Ribbon pfam08271
TFIIB zinc-binding; The transcription factor TFIIB contains a zinc-binding motif near the ...
 4-45 2.49e-13

TFIIB zinc-binding; The transcription factor TFIIB contains a zinc-binding motif near the N-terminus. This domain is involved in the interaction with RNA pol II and TFIIF and plays a crucial role in selecting the transcription initiation site. The domain adopts a zinc ribbon like structure.


Pssm-ID: 400527 [Multi-domain]  Cd Length: 43  Bit Score: 64.25  E-value: 2.49e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 767980344    4 RVCRGCGGTDIELDAARGDAVCTACGSVLEDNIIVSEVQFVE 45
Cdd:pfam08271   1 YKCPNCGSTNLVEDYERGELVCTDCGLVLEDNSIDEGPEWRE 42
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 93-158 9.71e-10

domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.


Pssm-ID: 214641 [Multi-domain]  Cd Length: 83  Bit Score: 55.29  E-value: 9.71e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 767980344    93 IHHLGNQLQLNQHCLDTAFNFFKMAVSRHLTRGRKMAHVIAACLYLVCRTEGTPHMLLDLSDLLQV 158
Cdd:smart00385   3 LRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYTGY 68
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 186-263 6.77e-07

domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.


Pssm-ID: 214641 [Multi-domain]  Cd Length: 83  Bit Score: 47.20  E-value: 6.77e-07
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767980344   186 YIPRFAHLLEFgekNHEVSMTALRLLQRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKVC-ESTLRKR 263
Cdd:smart00385   2 FLRRVCKALNL---DPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYTGYFtEEEILRM 77
 
Name Accession Description Interval E-value
CYCLIN_TFIIIB90_rpt2 cd20554
second cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar ...
 179-270 4.81e-60

second cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar proteins; TFIIIB90, also called B-related factor 1 (BRF-1), or TATA box-binding protein-associated factor, RNA polymerase III, subunit 2 (TAF3B2), is a general activator of RNA polymerase which utilizes different TFIIIB complexes at structurally distinct promoters. TFIIIB90 contains two cyclin boxes. This model corresponds to the second one. The cyclin box fold is generally a protein binding domain, but binds DNA in TFIIIB90.


Pssm-ID: 410257 [Multi-domain]  Cd Length: 92  Bit Score: 195.04  E-value: 4.81e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344 179 PAIDPCLYIPRFAHLLEFGEKNHEVSMTALRLLQRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKVCES 258
Cdd:cd20554    1 PVIDPSLYIHRFASKLEFGDKTHEVANTALRLVQRMKRDWIHTGRRPSGICGAALLIAARMHGFKRTVEEIVRVVRVCES 80

                         90
                 ....*....|..
gi 767980344 259 TLRKRLTEFEDT 270
Cdd:cd20554   81 TLRKRLREFEKT 92
CYCLIN_TFIIIB90_rpt1 cd20553
first cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar ...
 84-174 2.79e-55

first cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar proteins; TFIIIB90, also called B-related factor 1 (BRF-1), or TATA box-binding protein-associated factor, RNA polymerase III, subunit 2 (TAF3B2), is a general activator of RNA polymerase which utilizes different TFIIIB complexes at structurally distinct promoters. TFIIIB90 contains two cyclin boxes. This model corresponds to the first one. The cyclin box fold is generally a protein binding domain, but binds DNA in TFIIIB90.


Pssm-ID: 410256 [Multi-domain]  Cd Length: 91  Bit Score: 182.35  E-value: 2.79e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  84 QTLQNGRRHIHHLGNQLQLNQHCLDTAFNFFKMAVSRHLTRGRKMAHVIAACLYLVCRTEGTPHMLLDLSDLLQVNVYVL 163
Cdd:cd20553    1 ITLQNGRRKIQQLGSQLKLNQHHIDTAFRFYKLAVQRNFTRGRKTSHVAAACLYIVCRREKTPHMLIDFSDVLQVNVYVL 80

                         90
                 ....*....|.
gi 767980344 164 GKTFLLLAREL 174
Cdd:cd20553   81 GKTFLKLCKLL 91
SUA7 COG1405
Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB ...
 4-266 2.42e-41

Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription];


Pssm-ID: 441015 [Multi-domain]  Cd Length: 309  Bit Score: 152.29  E-value: 2.42e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344   4 RVCRGCGGTDIELDAARGDAVCTACGSVLEDNII----------VSEVQFVESsgggssaVGQFVSL------------- 60
Cdd:COG1405   12 SVCPECGGENLVTDTERGETVCEDCGLVVEEDVIdrgpewrafdSEERDERSR-------TGAPLTLarhdkglsteigw 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  61 ---DGAGKTptLGGG--------------FHVnlgKESRAQTLQNGRRHIHHLGNQLQLNQHCLDTAFNFFKMAVSRHLT 123
Cdd:COG1405   85 qdkDAYGKS--LSGRkrrqlarlrkwqnrSRV---SSSKERNLVQALSEIDRLASALGLPDSVRETAAVIYRKAVEKGLL 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344 124 RGRKMAHVIAACLYLVCRTEGTPHMLLDLSDLLQVNVYVLGKTFLLLARELCINAPAIDPCLYIPRFAHLLEFGEknhEV 203
Cdd:COG1405  160 RGRSIEGVAAAALYAACRQAGVPRTLDEIAEVSRVDRKEIARAYRLLNRELGLKVPPIDPIEYIPRIASELGLSE---EV 236

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 767980344 204 SMTALRLLQRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKVCESTLRKRLTE 266
Cdd:COG1405  237 ERRAREILEKAKEKGLTSGKNPAGLAAAALYLAALLLGEKVTQKEVAEVAGVTEVTIRNRYKE 299
BRF1 pfam07741
Brf1-like TBP-binding domain; In budding yeasts, Brf1 forms the TFIIIB complex with ...
 450-546 9.01e-39

Brf1-like TBP-binding domain; In budding yeasts, Brf1 forms the TFIIIB complex with TATA-binding protein (TBP) and Bdp1. The TFIIIB complex can be recruited to the Pol III promoters and form an exceptionally kinetically stable TFIIIB-DNA complex, which then recruits the Pol III enzymatic complex and helps maintain it for multiple transcription cycles in a process called facilitated recycling. This entry represents the TATA binding protein (TBP) binding domain of Brf1 that covers both the Brf homology II and III regions.


Pssm-ID: 462250 [Multi-domain]  Cd Length: 98  Bit Score: 138.08  E-value: 9.01e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  450 SGIDDLEIDRYILNESEARVKAELWMRENAEYLREQREKEARIAKEKELGIYKEHKPKKSCKRREPIQASTAREAIEKML 529
Cdd:pfam07741   1 SDLDDDELDNYILSEEEVKIKERIWVELNKDYLEEQAEKRLKAEAAEAAGKPKKKRKRKKKEKKNIGPASTAAEAAKNML 80

                          90
                  ....*....|....*..
gi 767980344  530 EQKKISSKINYSVLRGL 546
Cdd:pfam07741  81 KKKKFSKKINYDALKSL 97
TFIIB pfam00382
Transcription factor TFIIB repeat;
82-173 3.28e-34

Transcription factor TFIIB repeat;


Pssm-ID: 425652 [Multi-domain]  Cd Length: 92  Bit Score: 125.06  E-value: 3.28e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344   82 RAQTLQNGRRHIHHLGNQLQLNQHCLDTAFNFFKMAVSRHLTRGRKMAHVIAACLYLVCRTEGTPHMLLDLSDLLQVNVY 161
Cdd:pfam00382   1 RDQTLIDARRFIPRFADALELPEKVADAAFEIAKLAVDDNLLKGRSPAGIAAACLYIACRLEGTKRTLKEISSVLQVTEY 80

                          90
                  ....*....|..
gi 767980344  162 VLGKTFLLLARE 173
Cdd:pfam00382  81 TIGKTFKELKKA 92
tfb PRK00423
transcription initiation factor IIB; Reviewed
 4-278 3.38e-34

transcription initiation factor IIB; Reviewed


Pssm-ID: 234758 [Multi-domain]  Cd Length: 310  Bit Score: 132.44  E-value: 3.38e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344   4 RVCRGCGGTDIELDAARGDAVCTACGSVLEDNIIVSEVQ---FVESSGGGSSAVGQFVSL----------------DGAG 64
Cdd:PRK00423  12 LVCPECGSDKLIYDYERGEIVCADCGLVIEENIIDQGPEwraFDPEQREKRSRVGAPMTYtihdkglstdidwrnkDSYG 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  65 KTPTLGGGFHV-NLGKESR------------AQTLQNGRRhihhLGNQLQLNQHCLDTAFNFFKMAVSRHLTRGRKMAHV 131
Cdd:PRK00423  92 KSISGKNRAQLyRLRKWQRrirvsnaaernlAFALSELDR----IASQLGLPRSVREEAAVIYRKAVEKGLIRGRSIEGV 167

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344 132 IAACLYLVCRTEGTPHMLLDLSDLLQVNVYVLGKTFLLLARELCINAPAIDPCLYIPRFAHLLEFGEknhEVSMTALRLL 211
Cdd:PRK00423 168 VAAALYAACRRCKVPRTLDEIAEVSRVSRKEIGRCYRFLLRELNLKLPPTDPIDYVPRFASELGLSG---EVQKKAIEIL 244

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 767980344 212 QRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKVCESTLRKRLTEFedtpTSQLTID 278
Cdd:PRK00423 245 QKAKEKGLTSGKGPTGLAAAAIYIASLLLGERRTQREVAEVAGVTEVTVRNRYKEL----AEKLDIK 307
TFIIB pfam00382
Transcription factor TFIIB repeat;
176-270 5.78e-32

Transcription factor TFIIB repeat;


Pssm-ID: 425652 [Multi-domain]  Cd Length: 92  Bit Score: 118.90  E-value: 5.78e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  176 INAPAIDPCLYIPRFAHLLEFGEKnheVSMTALRLLQRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKV 255
Cdd:pfam00382   1 RDQTLIDARRFIPRFADALELPEK---VADAAFEIAKLAVDDNLLKGRSPAGIAAACLYIACRLEGTKRTLKEISSVLQV 77

                          90
                  ....*....|....*
gi 767980344  256 CESTLRKRLTEFEDT 270
Cdd:pfam00382  78 TEYTIGKTFKELKKA 92
CYCLIN_TFIIB_archaea_like_rpt2 cd20550
second cyclin box found in archaeal transcription initiation factor IIB (TFIIB) and similar ...
 182-269 2.57e-14

second cyclin box found in archaeal transcription initiation factor IIB (TFIIB) and similar proteins; Archaeal TFIIB stabilizes TATA-binding protein (TBP) binding to an archaeal box-A promoter. It is also responsible for recruiting RNA polymerase II to the pre-initiation complex (DNA-TBP-TFIIB). TFIIB contains two cyclin boxes. This model corresponds to the second one. The cyclin box fold is generally a protein binding domain, but binds DNA in TFIIB.


Pssm-ID: 410253 [Multi-domain]  Cd Length: 87  Bit Score: 68.38  E-value: 2.57e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344 182 DPCLYIPRFAHLLEFGEknhEVSMTALRLLQRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKVCESTLR 261
Cdd:cd20550    1 DPADYVPRFASKLGLSG---EVQRKAIEILEKAKKKGLTSGKGPAGLAAAAIYIASLLTGERRTQKEIAEVAGVTEVTIR 77


                 ....*...
gi 767980344 262 KRLTEFED 269
Cdd:cd20550   78 NRYKELLE 85
TF_Zn_Ribbon pfam08271
TFIIB zinc-binding; The transcription factor TFIIB contains a zinc-binding motif near the ...
 4-45 2.49e-13

TFIIB zinc-binding; The transcription factor TFIIB contains a zinc-binding motif near the N-terminus. This domain is involved in the interaction with RNA pol II and TFIIF and plays a crucial role in selecting the transcription initiation site. The domain adopts a zinc ribbon like structure.


Pssm-ID: 400527 [Multi-domain]  Cd Length: 43  Bit Score: 64.25  E-value: 2.49e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 767980344    4 RVCRGCGGTDIELDAARGDAVCTACGSVLEDNIIVSEVQFVE 45
Cdd:pfam08271   1 YKCPNCGSTNLVEDYERGELVCTDCGLVLEDNSIDEGPEWRE 42
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 93-169 5.71e-13

Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in cell-cycle and transcriptional control. It is about 100 amino acids in length, composed of five helices, and is present in cyclins, transcription initiation factor IIB (TFIIB), and retinoblastoma tumour suppressor protein (Rb). Cyclins consist of 8 classes of cell cycle regulators that function as regulatory subunits of cyclin-dependent kinases (CDKs), which are serine/threonine kinases. The catalytic activities of CDKs are modulated not only by their interactions with cyclins but also by CDK inhibitors (CKIs). CDKs, cyclins and CKIs play key roles in transcription, epigenetic regulation, metabolism, stem cell self-renewal, neuronal functions, and spermatogenesis. TFIIB is a transcription factor that binds the TATA box. Members in this superfamily contain one or two copies of the cyclin box.


Pssm-ID: 410207 [Multi-domain]  Cd Length: 82  Bit Score: 64.74  E-value: 5.71e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 767980344  93 IHHLGNQLQLNQHCLDTAFNFFKMAVSRHLTRGRKMAHVIAACLYLVCRTEGTPHMLLDLSDLLQVNVYVLGKTFLL 169
Cdd:cd00043    6 IRRLCSKLGLPEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTLKEIAKVSGVSEKELRKAEKE 82
CYCLIN_TFIIB_archaea_like_rpt1 cd20549
first cyclin box found in archaeal transcription initiation factor IIB (TFIIB) and similar ...
 86-174 2.10e-12

first cyclin box found in archaeal transcription initiation factor IIB (TFIIB) and similar proteins; Archaeal TFIIB stabilizes TATA-binding protein (TBP) binding to an archaeal box-A promoter. It is also responsible for recruiting RNA polymerase II to the pre-initiation complex (DNA-TBP-TFIIB). TFIIB contains two cyclin boxes. This model corresponds to the first one. The cyclin box fold is generally a protein binding domain, but binds DNA in TFIIB.


Pssm-ID: 410252 [Multi-domain]  Cd Length: 99  Bit Score: 63.45  E-value: 2.10e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  86 LQNGRRHIHHLGNQLQLNQHCLDTAFNFFKMAVSRHLTRGRKMAHVIAACLYLVCRTEGTPHMLLDLSDLLQVNVYVLGK 165
Cdd:cd20549    9 LAQALSELDRMASKLGLPRSVREEAAVIYRKAVEKGLVRGRSIESVVAAALYAACRICNVPRTLDEIAEATRVSRKEIAR 88


                 ....*....
gi 767980344 166 TFLLLAREL 174
Cdd:cd20549   89 CYRLLAREL 97
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 182-263 9.68e-11

Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in cell-cycle and transcriptional control. It is about 100 amino acids in length, composed of five helices, and is present in cyclins, transcription initiation factor IIB (TFIIB), and retinoblastoma tumour suppressor protein (Rb). Cyclins consist of 8 classes of cell cycle regulators that function as regulatory subunits of cyclin-dependent kinases (CDKs), which are serine/threonine kinases. The catalytic activities of CDKs are modulated not only by their interactions with cyclins but also by CDK inhibitors (CKIs). CDKs, cyclins and CKIs play key roles in transcription, epigenetic regulation, metabolism, stem cell self-renewal, neuronal functions, and spermatogenesis. TFIIB is a transcription factor that binds the TATA box. Members in this superfamily contain one or two copies of the cyclin box.


Pssm-ID: 410207 [Multi-domain]  Cd Length: 82  Bit Score: 58.19  E-value: 9.68e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344 182 DPCLYIPRFAHLLEFgekNHEVSMTALRLLQRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKVCESTLR 261
Cdd:cd00043    1 KAVDFIRRLCSKLGL---PEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTLKEIAKVSGVSEKELR 77


                 ..
gi 767980344 262 KR 263
Cdd:cd00043   78 KA 79
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 93-158 9.71e-10

domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.


Pssm-ID: 214641 [Multi-domain]  Cd Length: 83  Bit Score: 55.29  E-value: 9.71e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 767980344    93 IHHLGNQLQLNQHCLDTAFNFFKMAVSRHLTRGRKMAHVIAACLYLVCRTEGTPHMLLDLSDLLQV 158
Cdd:smart00385   3 LRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYTGY 68
CYCLIN_BRF2 cd20555
cyclin box found in B-related factor 2 (BRF-2) and similar proteins; BRF-2, also called ...
 86-176 2.97e-07

cyclin box found in B-related factor 2 (BRF-2) and similar proteins; BRF-2, also called transcription factor IIIB 50 kDa subunit (TFIIIB50), or BRFU, is a general activator of RNA polymerase (Pol) III transcription and is required for Pol III transcription of genes with promoter elements upstream of the initiation sites. It recruits Pol III to type III gene-external promoters, including the U6 spliceosomal RNA and selenocysteine tRNA genes. BRF-2 contains one cyclin box. The cyclin box fold is generally a protein binding domain, but binds DNA in BRF-2.


Pssm-ID: 410258 [Multi-domain]  Cd Length: 97  Bit Score: 48.81  E-value: 2.97e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  86 LQNGRRHIHHLGNQLQLNQHCLDTAFNFFKMAVS----RHLTRGRKMAHViAACLYLVCRTEGTPHMLLDLSDLLQVNVY 161
Cdd:cd20555    4 LKQGLKRVRDLCRVLRLSSVMEETAVELFEQAFKhpdfRHIRLEKKEVLV-GCCVYIVCRQNNWPVTMGDICSLLQCDVS 82

                         90
                 ....*....|....*
gi 767980344 162 VLGKTFLLLARELCI 176
Cdd:cd20555   83 DFSSVYKELLKELNI 97
CYCLIN_TFIIB_rpt1 cd20551
first cyclin box found in transcription initiation factor IIB (TFIIB) and similar proteins; ...
 88-174 3.08e-07

first cyclin box found in transcription initiation factor IIB (TFIIB) and similar proteins; TFIIB, also called B-related factor 2 (BRF-2) or S300-II, is a general transcription factor that plays a role in transcription initiation by RNA polymerase II (Pol II). It is involved in the pre-initiation complex (PIC) formation and Pol II recruitment at promoter DNA. TFIIB contains two cyclin boxes. This model corresponds to the first one. The cyclin box fold is generally a protein binding domain, but binds DNA in TFIIB.


Pssm-ID: 410254 [Multi-domain]  Cd Length: 88  Bit Score: 48.35  E-value: 3.08e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767980344  88 NGRRHIHHLGNQLQLNQHCLDTAFNFFKMAVSRHLTRGRKMAHVIAACLYLVCRTEGTPHMLLDLSDLLQVNVYVLGKTF 167
Cdd:cd20551    1 AAFKEIGEMADRMNLPRTIKDRAKELFKQVHDQKSLKGRSNDAIAAACLYIACRQEGVPRTFKEICAVSNVSKKEIGRCF 80


                 ....*..
gi 767980344 168 LLLAREL 174
Cdd:cd20551   81 KLILKAL 87
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 186-263 6.77e-07

domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.


Pssm-ID: 214641 [Multi-domain]  Cd Length: 83  Bit Score: 47.20  E-value: 6.77e-07
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767980344   186 YIPRFAHLLEFgekNHEVSMTALRLLQRMKRDWMHTGRRPSGLCGAALLVAARMHDFRRTVKEVISVVKVC-ESTLRKR 263
Cdd:smart00385   2 FLRRVCKALNL---DPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYTGYFtEEEILRM 77
CYCLIN_CCNC_rpt1 cd20513
first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 92-146 1.12e-03

first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or SRB11, is a component of the Mediator complex, a coactivator involved in regulated gene transcription of nearly all RNA polymerase II-dependent genes. It mediates stress-induced mitochondrial fission and apoptosis. CCNC contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410217 [Multi-domain]  Cd Length: 101  Bit Score: 38.73  E-value: 1.12e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 767980344  92 HIHHLGNQLQLNQHCLDTAFNFFKMAVSRHLTRGRKMAHVIAACLYLVCRTEGTP 146
Cdd:cd20513    8 FIQALGERLKLRQRVIATAIVYFKRFYARNSFKDIDPRLVAPTCLYLASKVEECP 62
 
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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