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Conserved domains on  [gi|1530732339|pdb|6F3T|E]
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Chain E, Transcription initiation factor TFIID subunit 6

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HFD_TAF6 cd22931
histone-fold domain found in transcription initiation factor TFIID subunit 6 (TAF6) and ...
 8-73 6.54e-32

histone-fold domain found in transcription initiation factor TFIID subunit 6 (TAF6) and similar proteins; TAF6, also called TATA Binding Protein (TBP) associated factor 6, RNA polymerase II TBP-associated factor subunit E, transcription initiation factor TFIID 70 kDa subunit (TAF(II)70, TAFII-70, TAFII70), or transcription initiation factor TFIID 80 kDa subunit (TAF(II)80, TAFII-80, TAFII80), is a TBP-associated factor (TAF). TAFs are components of the transcription factor IID (TFIID) complex, PCAF histone acetylase complex, and TBP-free TAFII complex (TFTC). TIIFD is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. TFIID and PCAF are composed of TATA binding protein (TBP) and several TAFs. TBP is not part of TFTC.


:

Pssm-ID: 467055  Cd Length: 66  Bit Score: 106.04  E-value: 6.54e-32
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|....*.
6F3T_E       8 TVLPSESMKVVAESMGIAQIQEETCQLLTDEVSYRIKEIAQDALKFMHMGKRQKLTTSDIDYALKL 73
Cdd:cd22931  1 SVLPPESVKVIAESVGISNLSDEAARALADDVEYRLREIIQDALKFMRHSKRTKLTTDDIDNALRL 66
 
Name Accession Description Interval E-value
HFD_TAF6 cd22931
histone-fold domain found in transcription initiation factor TFIID subunit 6 (TAF6) and ...
 8-73 6.54e-32

histone-fold domain found in transcription initiation factor TFIID subunit 6 (TAF6) and similar proteins; TAF6, also called TATA Binding Protein (TBP) associated factor 6, RNA polymerase II TBP-associated factor subunit E, transcription initiation factor TFIID 70 kDa subunit (TAF(II)70, TAFII-70, TAFII70), or transcription initiation factor TFIID 80 kDa subunit (TAF(II)80, TAFII-80, TAFII80), is a TBP-associated factor (TAF). TAFs are components of the transcription factor IID (TFIID) complex, PCAF histone acetylase complex, and TBP-free TAFII complex (TFTC). TIIFD is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. TFIID and PCAF are composed of TATA binding protein (TBP) and several TAFs. TBP is not part of TFTC.


Pssm-ID: 467055  Cd Length: 66  Bit Score: 106.04  E-value: 6.54e-32
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|....*.
6F3T_E       8 TVLPSESMKVVAESMGIAQIQEETCQLLTDEVSYRIKEIAQDALKFMHMGKRQKLTTSDIDYALKL 73
Cdd:cd22931  1 SVLPPESVKVIAESVGISNLSDEAARALADDVEYRLREIIQDALKFMRHSKRTKLTTDDIDNALRL 66
TAF smart00803
TATA box binding protein associated factor; TAFs (TATA box binding protein associated factors) ...
 8-72 4.30e-30

TATA box binding protein associated factor; TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.


Pssm-ID: 129039  Cd Length: 65  Bit Score: 101.54  E-value: 4.30e-30
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
6F3T_E          8 TVLPSESMKVVAESMGIAQIQEETCQLLTDEVSYRIKEIAQDALKFMHMGKRQKLTTSDIDYALK 72
Cdd:smart00803  1 SWLPKETIKDVAESLGIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65
TAF pfam02969
TATA box binding protein associated factor (TAF); TAF proteins adopt a histone-like fold.
 7-72 4.64e-29

TATA box binding protein associated factor (TAF); TAF proteins adopt a histone-like fold.


Pssm-ID: 427084  Cd Length: 66  Bit Score: 99.04  E-value: 4.64e-29
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
6F3T_E         7 NTVLPSESMKVVAESMGIAQIQEETCQLLTDEVSYRIKEIAQDALKFMHMGKRQKLTTSDIDYALK 72
Cdd:pfam02969  1 TSIIPQESVKVVAESLGITNLNDEAAALLAEDVEYRLKEIVQEAAKFMRHSKRTKLTVADVDSALR 66
TAF6 COG5095
Transcription initiation factor TFIID, subunit TAF6 (also component of histone ...
 5-82 8.82e-21

Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription];


Pssm-ID: 227426 [Multi-domain]  Cd Length: 450  Bit Score: 84.64  E-value: 8.82e-21
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
6F3T_E        5 LSNTVLPSESMKVVAESMGIAQIQEETCQLLTDEVSYRIKEIAQDALKFMHMGKRQKLTTSDIDYALKLKNVEPLYGF 82
Cdd:COG5095   1 MSLTLWSKETLKDVAESLGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRSLNVEPLYGY 78
 
Name Accession Description Interval E-value
HFD_TAF6 cd22931
histone-fold domain found in transcription initiation factor TFIID subunit 6 (TAF6) and ...
 8-73 6.54e-32

histone-fold domain found in transcription initiation factor TFIID subunit 6 (TAF6) and similar proteins; TAF6, also called TATA Binding Protein (TBP) associated factor 6, RNA polymerase II TBP-associated factor subunit E, transcription initiation factor TFIID 70 kDa subunit (TAF(II)70, TAFII-70, TAFII70), or transcription initiation factor TFIID 80 kDa subunit (TAF(II)80, TAFII-80, TAFII80), is a TBP-associated factor (TAF). TAFs are components of the transcription factor IID (TFIID) complex, PCAF histone acetylase complex, and TBP-free TAFII complex (TFTC). TIIFD is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. TFIID and PCAF are composed of TATA binding protein (TBP) and several TAFs. TBP is not part of TFTC.


Pssm-ID: 467055  Cd Length: 66  Bit Score: 106.04  E-value: 6.54e-32
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|....*.
6F3T_E       8 TVLPSESMKVVAESMGIAQIQEETCQLLTDEVSYRIKEIAQDALKFMHMGKRQKLTTSDIDYALKL 73
Cdd:cd22931  1 SVLPPESVKVIAESVGISNLSDEAARALADDVEYRLREIIQDALKFMRHSKRTKLTTDDIDNALRL 66
TAF smart00803
TATA box binding protein associated factor; TAFs (TATA box binding protein associated factors) ...
 8-72 4.30e-30

TATA box binding protein associated factor; TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.


Pssm-ID: 129039  Cd Length: 65  Bit Score: 101.54  E-value: 4.30e-30
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
6F3T_E          8 TVLPSESMKVVAESMGIAQIQEETCQLLTDEVSYRIKEIAQDALKFMHMGKRQKLTTSDIDYALK 72
Cdd:smart00803  1 SWLPKETIKDVAESLGIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65
TAF pfam02969
TATA box binding protein associated factor (TAF); TAF proteins adopt a histone-like fold.
 7-72 4.64e-29

TATA box binding protein associated factor (TAF); TAF proteins adopt a histone-like fold.


Pssm-ID: 427084  Cd Length: 66  Bit Score: 99.04  E-value: 4.64e-29
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
6F3T_E         7 NTVLPSESMKVVAESMGIAQIQEETCQLLTDEVSYRIKEIAQDALKFMHMGKRQKLTTSDIDYALK 72
Cdd:pfam02969  1 TSIIPQESVKVVAESLGITNLNDEAAALLAEDVEYRLKEIVQEAAKFMRHSKRTKLTVADVDSALR 66
HFD_TAF6-like cd22917
histone-fold domain found in transcription initiation factor TFIID subunit 6 (TAF6) and ...
 11-73 2.50e-24

histone-fold domain found in transcription initiation factor TFIID subunit 6 (TAF6) and similar proteins; This subfamily includes TAF6 and TAF6-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L (TAF6L). TAF6, also called TATA Binding Protein (TBP) associated factor 6, RNA polymerase II TBP-associated factor subunit E, transcription initiation factor TFIID 70 kDa subunit (TAF(II)70, TAFII-70, TAFII70), or transcription initiation factor TFIID 80 kDa subunit, (TAF(II)80, TAFII-80, TAFII80), is a TBP-associated factor (TAF). TAFs are components of the transcription factor IID (TFIID) complex, PCAF histone acetylase complex, and TBP-free TAFII complex (TFTC). TIIFD is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. TFIID and PCAF are composed of TATA binding protein (TBP) and several TAFs. TBP is not part of TFTC. TAF6L, also called PCAF-associated factor 65-alpha (PAF65-alpha), is a component of the PCAF complex, which can efficiently acetylate histones in a nucleosomal context. The PCAF complex is composed of several TAFs and PCAF-associated factors (PAFs). It might be the human version of the yeast SAGA complex. With TAF5L, TAF6L acts as an epigenetic regulator essential for somatic reprogramming. It also regulates target genes through H3K9ac deposition and MYC recruitment, which trigger the MYC regulatory network to orchestrate gene expression programs to control embryonic stem cell state.


Pssm-ID: 467042  Cd Length: 64  Bit Score: 86.88  E-value: 2.50e-24
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|...
6F3T_E      11 PSESMKVVAESMGIAQIQEETCQLLTDEVSYRIKEIAQDALKFMHMGKRQKLTTSDIDYALKL 73
Cdd:cd22917  2 PNDTVKLIAESLGIVNLSEEVAQLLAEDAEYRILEVIQNAKKFAHHSKRKKLTADDINNALRL 64
HFD_TAF6L cd22932
histone-fold domain found in TAF6-like RNA polymerase II p300/CBP-associated factor-associated ...
 10-81 2.71e-24

histone-fold domain found in TAF6-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L (TAF6L) and similar proteins; TAF6L, also called PCAF-associated factor 65-alpha (PAF65-alpha), is a component of the PCAF complex, which can efficiently acetylate histones in a nucleosomal context. The PCAF complex is composed of several TBP-associated factors (TAFs) and PCAF-associated factors (PAFs). It might be the human version of the yeast SAGA complex. With TAF5L, TAF6L acts as an epigenetic regulator essential for somatic reprogramming. It also regulates target genes through H3K9ac deposition and MYC recruitment, which trigger the MYC regulatory network to orchestrate gene expression programs to control embryonic stem cell state.


Pssm-ID: 467056  Cd Length: 72  Bit Score: 86.87  E-value: 2.71e-24
                       10        20        30        40        50        60        70
               ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
6F3T_E      10 LPSESMKVVAESMGIAQIQEETCQLLTDEVSYRIKEIAQDALKFMHMGKRQKLTTSDIDYALKLKNVEPLYG 81
Cdd:cd22932  1 LSTESIRLMAESLGISELSEDVAKLLAEDVSYRLREVIQNASQFMRHSKRRKLTTEDVNRALKWSDVEPVYG 72
TAF6 COG5095
Transcription initiation factor TFIID, subunit TAF6 (also component of histone ...
 5-82 8.82e-21

Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription];


Pssm-ID: 227426 [Multi-domain]  Cd Length: 450  Bit Score: 84.64  E-value: 8.82e-21
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
6F3T_E        5 LSNTVLPSESMKVVAESMGIAQIQEETCQLLTDEVSYRIKEIAQDALKFMHMGKRQKLTTSDIDYALKLKNVEPLYGF 82
Cdd:COG5095   1 MSLTLWSKETLKDVAESLGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRSLNVEPLYGY 78
HFD_SF cd00076
histone fold domain (HFD) superfamily; The histone fold domain (HFD) is a structurally ...
 10-72 1.91e-07

histone fold domain (HFD) superfamily; The histone fold domain (HFD) is a structurally conserved interaction motif involved in heterodimerization of the core histones and their assembly into the nucleosome octamer. Histone fold heterodimers play crucial roles in gene regulation. The minimal HFD consists of three alpha helices connected by two short, unstructured loops. The HFD is found in core histones, TATA box-binding protein-associated factors (TAFs), and many other transcription factors. HFD plays a role in the nucleosomal core particle by conserving histone interactions; these contain more than one HFD. The structure of the nucleosome core particle has two modes that have the largest interaction surfaces, and these are the H3-H4 and H2A-H2B heterodimer interactions. Several TAFs interact via histone-fold (HF) motifs. Five HF-containing TAF pairs have been described in transcription factor II D (TFIID): TAF6-TAF9, TAF4-TAF12, TAF11-TAF13, TAF8-TAF10 and TAF3-TAF10.


Pssm-ID: 467021  Cd Length: 63  Bit Score: 43.75  E-value: 1.91e-07
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|...
6F3T_E      10 LPSESMKVVAESMGIAQIQEETCQLLTDEVSYRIKEIAQDALKFMHMGKRQKLTTSDIDYALK 72
Cdd:cd00076  1 LLRSAVARILKSAGFDSVSKSALELLSDLLERYLEELARAAKAYAELAGRTTPNAEDVELALE 63
HFD_archaea_histone-like cd22909
histone-fold domain mainly found in archaeal histone-fold proteins, histone-like transcription ...
 10-72 3.24e-03

histone-fold domain mainly found in archaeal histone-fold proteins, histone-like transcription regulators and similar proteins; The family includes many archaeal histone-fold proteins and histone-like transcription regulators, which may bind and compact DNA (95 to 150 base pairs) to form nucleosome-like structures that contain positive DNA supercoils. They can increase the resistance of DNA to thermal denaturation.


Pssm-ID: 467034  Cd Length: 64  Bit Score: 32.90  E-value: 3.24e-03
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|...
6F3T_E      10 LPSESMKVVAESMGIAQIQEETCQLLTDEVSYRIKEIAQDALKFMHMGKRQKLTTSDIDYALK 72
Cdd:cd22909  2 LPKAPVKRIIKKAGAERVSEDAAEELAKLLEEIAEEIAEEAVKLAKHAGRKTVKAEDIELAVK 64
 
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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