Protein : Qrob_P0376200.2 Q. robur

Protein Identifier  ? Qrob_P0376200.2 Organism . Name  Quercus robur
Score  4.1 Score Type  egn
Protein Description  (M=1) K03129 - transcription initiation factor TFIID subunit 4 Gene Prediction Quality  validated
Protein length 

Sequence

Length: 892  
Kegg Orthology  K03129

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0 Synonyms

3 GO Terms

Identifier Name Description
GO:0006352 DNA-templated transcription, initiation Any process involved in the assembly of the RNA polymerase preinitiation complex (PIC) at the core promoter region of a DNA template, resulting in the subsequent synthesis of RNA from that promoter. The initiation phase includes PIC assembly and the formation of the first few bonds in the RNA chain, including abortive initiation, which occurs when the first few nucleotides are repeatedly synthesized and then released. The initiation phase ends just before and does not include promoter clearance, or release, which is the transition between the initiation and elongation phases of transcription.
GO:0046982 protein heterodimerization activity Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
GO:0005669 transcription factor TFIID complex A complex composed of TATA binding protein (TBP) and TBP associated factors (TAFs); the total mass is typically about 800 kDa. Most of the TAFs are conserved across species. In TATA-containing promoters for RNA polymerase II (Pol II), TFIID is believed to recognize at least two distinct elements, the TATA element and a downstream promoter element. TFIID is also involved in recognition of TATA-less Pol II promoters. Binding of TFIID to DNA is necessary but not sufficient for transcription initiation from most RNA polymerase II promoters.

15 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|vvi:100252311 30 891 + 862 Gaps:76 94.79 922 61.78 0.0 uncharacterized LOC100252311
blastp_kegg lcl|tcc:TCM_034730 27 891 + 865 Gaps:104 95.05 950 61.24 0.0 TBP-associated factor 4 putative isoform 1
blastp_kegg lcl|cit:102619964 29 888 + 860 Gaps:98 94.66 955 60.18 0.0 transcription initiation factor TFIID subunit 4b-like
blastp_kegg lcl|pmum:103336646 30 891 + 862 Gaps:96 94.80 962 61.95 0.0 transcription initiation factor TFIID subunit 4b-like
blastp_kegg lcl|mdm:103436717 30 891 + 862 Gaps:103 96.52 948 59.89 0.0 transcription initiation factor TFIID subunit 4b
blastp_kegg lcl|cic:CICLE_v10000177mg 29 891 + 863 Gaps:98 95.07 954 59.65 0.0 hypothetical protein
blastp_kegg lcl|pxb:103961745 30 891 + 862 Gaps:103 94.82 965 60.44 0.0 transcription initiation factor TFIID subunit 4b-like
blastp_kegg lcl|pper:PRUPE_ppa001063mg 29 891 + 863 Gaps:77 94.78 920 63.07 0.0 hypothetical protein
blastp_kegg lcl|fve:101295421 30 891 + 862 Gaps:108 94.78 958 59.14 0.0 uncharacterized protein LOC101295421
blastp_kegg lcl|gmx:100795389 30 888 + 859 Gaps:86 94.65 935 56.72 0.0 transcription initiation factor TFIID subunit 4b-like
blastp_uniprot_sprot sp|F4K4L7|TAF4B_ARATH 30 882 + 853 Gaps:169 94.84 852 49.88 0.0 Transcription initiation factor TFIID subunit 4b OS Arabidopsis thaliana GN TAF4B PE 1 SV 1
blastp_uniprot_sprot sp|Q6SJR1|TAF4_ARATH 170 888 + 719 Gaps:119 92.22 720 43.52 1e-117 Transcription initiation factor TFIID subunit 4 OS Arabidopsis thaliana GN TAF4 PE 1 SV 1
rpsblast_cdd gnl|CDD|191240 603 882 + 280 Gaps:63 100.00 255 30.98 9e-45 pfam05236 TAF4 Transcription initiation factor TFIID component TAF4 family. This region of similarity is found in Transcription initiation factor TFIID component TAF4.
rpsblast_cdd gnl|CDD|173965 598 778 + 181 Gaps:34 88.21 212 36.90 3e-36 cd08045 TAF4 TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA TFIIB TFIID TFIIE TFIIF and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryote. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as activator-binding sites core-promoter recognition or a role in essential catalytic activity. Each TAF with the help of a specific activator is required only for the expression of subset of genes and is not universally involved for transcription as are GTFs. In yeast and human cells TAFs have been found as components of other complexes besides TFIID. Several TAFs interact via histone-fold (HFD) motifs HFD is the interaction motif involved in heterodimerization of the core histones and their assembly into nucleosome octamers. The minimal HFD contains three alpha-helices linked by two loops and is found in core histones TAFS and many other transcription factors. TFIID has a histone octamer-like substructure. TAF4 domain interacts with TAF12 and makes a novel histone-like heterodimer that binds DNA and has a core promoter function of a subset of genes.
rpsblast_kog gnl|CDD|37552 168 883 + 716 Gaps:208 93.07 563 27.48 7e-27 KOG2341 KOG2341 KOG2341 TATA box binding protein (TBP)-associated factor RNA polymerase II [Transcription].

7 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
PANTHER 38 58 21 PTHR15138 none none none
PANTHER 561 785 225 PTHR15138 none none none
PANTHER 817 886 70 PTHR15138 none none none
Coils 704 725 22 Coil none none none
Gene3D 647 679 33 G3DSA:1.10.20.10 none none IPR009072
Pfam 197 230 34 PF12174 none RCD1-SRO-TAF4 (RST) plant domain IPR022003
Pfam 603 882 280 PF05236 "Reactome:REACT_1788","Reactome:REACT_6185","Reactome:REACT_71" Transcription initiation factor TFIID component TAF4 family IPR007900

0 Localization

4 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran2_2015_nEpiBC_3P Qrob_Chr12 12 s_1B73S5_217 v_7050_211 28,31 26,37 28,45 lod 4.5 11.6
Bourran2_2015_nP_3P Qrob_Chr12 12 v_10140_295 v_838_303 16 14,69 18,01 lod 5.1 13.7
Bourran2_2015_nSecLBD_3P Qrob_Chr12 12 s_A4YYC_633 s_2F1IZB_703 18,64 18,01 21,53 lod 6.5 17.2
Bourran2_2014_nSeqBC_3P Qrob_Chr12 12 s_1EO8V5_710 s_1A2VMU_355 11,04 0 32,58 lod 1,7196 4,7

0 Targeting