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Conserved domains on  [gi|338753412|ref|NP_001229718|]
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transcription factor IIIB 90 kDa subunit isoform 7 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
BRF1 pfam07741
Brf1-like TBP-binding domain; In budding yeasts, Brf1 forms the TFIIIB complex with ...
 212-308 1.64e-36

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: 129.22  E-value: 1.64e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 338753412  212 SGIDDLEIDRYILNESEARVKAELWMRENAEYLREQREKEARIAKEKELGIYKEHKPKKSCKRREPIQASTAREAIEKML 291
Cdd:pfam07741   1 SDLDDDELDNYILSEEEVKIKERIWVELNKDYLEEQAEKRLKAEAAEAAGKPKKKRKRKKKEKKNIGPASTAAEAAKNML 80

                          90
                  ....*....|....*..
gi 338753412  292 EQKKISSKINYSVLRGL 308
Cdd:pfam07741  81 KKKKFSKKINYDALKSL 97
CYCLIN_SF super family cl40454
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 1-32 7.12e-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.


The actual alignment was detected with superfamily member cd20554:

Pssm-ID: 477360 [Multi-domain]  Cd Length: 92  Bit Score: 64.07  E-value: 7.12e-13
                         10        20        30
                 ....*....|....*....|....*....|..
gi 338753412   1 MHDFRRTVKEVISVVKVCESTLRKRLTEFEDT 32
Cdd:cd20554   61 MHGFKRTVEEIVRVVRVCESTLRKRLREFEKT 92
 
Name Accession Description Interval E-value
BRF1 pfam07741
Brf1-like TBP-binding domain; In budding yeasts, Brf1 forms the TFIIIB complex with ...
 212-308 1.64e-36

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: 129.22  E-value: 1.64e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 338753412  212 SGIDDLEIDRYILNESEARVKAELWMRENAEYLREQREKEARIAKEKELGIYKEHKPKKSCKRREPIQASTAREAIEKML 291
Cdd:pfam07741   1 SDLDDDELDNYILSEEEVKIKERIWVELNKDYLEEQAEKRLKAEAAEAAGKPKKKRKRKKKEKKNIGPASTAAEAAKNML 80

                          90
                  ....*....|....*..
gi 338753412  292 EQKKISSKINYSVLRGL 308
Cdd:pfam07741  81 KKKKFSKKINYDALKSL 97
CYCLIN_TFIIIB90_rpt2 cd20554
second cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar ...
 1-32 7.12e-13

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: 64.07  E-value: 7.12e-13
                         10        20        30
                 ....*....|....*....|....*....|..
gi 338753412   1 MHDFRRTVKEVISVVKVCESTLRKRLTEFEDT 32
Cdd:cd20554   61 MHGFKRTVEEIVRVVRVCESTLRKRLREFEKT 92
TFIIB pfam00382
Transcription factor TFIIB repeat;
1-32 5.31e-06

Transcription factor TFIIB repeat;


Pssm-ID: 425652 [Multi-domain]  Cd Length: 92  Bit Score: 44.56  E-value: 5.31e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 338753412    1 MHDFRRTVKEVISVVKVCESTLRKRLTEFEDT 32
Cdd:pfam00382  61 LEGTKRTLKEISSVLQVTEYTIGKTFKELKKA 92
 
Name Accession Description Interval E-value
BRF1 pfam07741
Brf1-like TBP-binding domain; In budding yeasts, Brf1 forms the TFIIIB complex with ...
 212-308 1.64e-36

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: 129.22  E-value: 1.64e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 338753412  212 SGIDDLEIDRYILNESEARVKAELWMRENAEYLREQREKEARIAKEKELGIYKEHKPKKSCKRREPIQASTAREAIEKML 291
Cdd:pfam07741   1 SDLDDDELDNYILSEEEVKIKERIWVELNKDYLEEQAEKRLKAEAAEAAGKPKKKRKRKKKEKKNIGPASTAAEAAKNML 80

                          90
                  ....*....|....*..
gi 338753412  292 EQKKISSKINYSVLRGL 308
Cdd:pfam07741  81 KKKKFSKKINYDALKSL 97
CYCLIN_TFIIIB90_rpt2 cd20554
second cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar ...
 1-32 7.12e-13

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: 64.07  E-value: 7.12e-13
                         10        20        30
                 ....*....|....*....|....*....|..
gi 338753412   1 MHDFRRTVKEVISVVKVCESTLRKRLTEFEDT 32
Cdd:cd20554   61 MHGFKRTVEEIVRVVRVCESTLRKRLREFEKT 92
TFIIB pfam00382
Transcription factor TFIIB repeat;
1-32 5.31e-06

Transcription factor TFIIB repeat;


Pssm-ID: 425652 [Multi-domain]  Cd Length: 92  Bit Score: 44.56  E-value: 5.31e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 338753412    1 MHDFRRTVKEVISVVKVCESTLRKRLTEFEDT 32
Cdd:pfam00382  61 LEGTKRTLKEISSVLQVTEYTIGKTFKELKKA 92
 
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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