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Protein

General transcription and DNA repair factor IIH subunit TFB1-3

Gene

TFB1-3

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: -Experimental evidence at transcript leveli

Functioni

Component of the general transcription and DNA repair factor IIH (TFIIH) core complex, which is involved in general and transcription-coupled nucleotide excision repair (NER) of damaged DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. In NER, TFIIH acts by opening DNA around the lesion to allow the excision of the damaged oligonucleotide and its replacement by a new DNA fragment. In transcription, TFIIH has an essential role in transcription initiation. When the pre-initiation complex (PIC) has been established, TFIIH is required for promoter opening and promoter escape. Phosphorylation of the C-terminal tail (CTD) of the largest subunit of RNA polymerase II by the kinase module CAK controls the initiation of transcription.By similarity

GO - Biological processi

Keywordsi

Biological processDNA damage, DNA repair, Transcription, Transcription regulation

Enzyme and pathway databases

ReactomeiR-ATH-113418 Formation of the Early Elongation Complex
R-ATH-5696395 Formation of Incision Complex in GG-NER
R-ATH-5696400 Dual Incision in GG-NER
R-ATH-674695 RNA Polymerase II Pre-transcription Events
R-ATH-6781823 Formation of TC-NER Pre-Incision Complex
R-ATH-6782135 Dual incision in TC-NER
R-ATH-6782210 Gap-filling DNA repair synthesis and ligation in TC-NER
R-ATH-6796648 TP53 Regulates Transcription of DNA Repair Genes
R-ATH-72086 mRNA Capping
R-ATH-73776 RNA Polymerase II Promoter Escape
R-ATH-73779 RNA Polymerase II Transcription Pre-Initiation And Promoter Opening
R-ATH-75953 RNA Polymerase II Transcription Initiation
R-ATH-76042 RNA Polymerase II Transcription Initiation And Promoter Clearance
R-ATH-77075 RNA Pol II CTD phosphorylation and interaction with CE

Names & Taxonomyi

Protein namesi
Recommended name:
General transcription and DNA repair factor IIH subunit TFB1-3
Short name:
AtTFB1-31 Publication
Short name:
TFIIH subunit TFB1-3
Alternative name(s):
RNA polymerase II transcription factor B subunit 1-3
Gene namesi
Name:TFB1-3Curated
Synonyms:GTF2H1-2Curated
Ordered Locus Names:At3g61420
ORF Names:F2A19.20
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

AraportiAT3G61420
TAIRilocus:2082812 AT3G61420

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004060931 – 579General transcription and DNA repair factor IIH subunit TFB1-3Add BLAST579

Proteomic databases

PaxDbiQ9M322

Expressioni

Gene expression databases

ExpressionAtlasiQ9M322 baseline and differential
GenevisibleiQ9M322 AT

Interactioni

Subunit structurei

Component of the 7-subunit TFIIH core complex composed of XPB, XPD, TFB1/GTF2H1, GTF2H2/P44, TFB4/GTF2H3, TFB2/GTF2H4 and TFB5/GTF2H5, which is active in NER. The core complex associates with the 3-subunit CDK-activating kinase (CAK) module composed of CYCH1/cyclin H1, CDKD and MAT1/At4g30820 to form the 10-subunit holoenzyme (holo-TFIIH) active in transcription.By similarity1 Publication

Protein-protein interaction databases

STRINGi3702.AT3G61420.1

Structurei

3D structure databases

ProteinModelPortaliQ9M322
SMRiQ9M322
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini107 – 161BSD 1PROSITE-ProRule annotationAdd BLAST55
Domaini186 – 238BSD 2PROSITE-ProRule annotationAdd BLAST53

Sequence similaritiesi

Belongs to the TFB1 family.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG2074 Eukaryota
ENOG410XRI6 LUCA
HOGENOMiHOG000006252
InParanoidiQ9M322
KOiK03141
OMAiTHNIKSQ
OrthoDBiEOG093608QO
PhylomeDBiQ9M322

Family and domain databases

InterProiView protein in InterPro
IPR005607 BSD_dom
IPR027079 Tfb1/GTF2H1
IPR013876 TFIIH_BTF_p62_N
PANTHERiPTHR12856 PTHR12856, 1 hit
PfamiView protein in Pfam
PF03909 BSD, 1 hit
PF08567 PH_TFIIH, 1 hit
SMARTiView protein in SMART
SM00751 BSD, 2 hits
PROSITEiView protein in PROSITE
PS50858 BSD, 2 hits

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9M322-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MEKRVKYKSF VKDPGTLGSL ELSEVMLLFV PNDPKSDLKL KVQTHNIKSQ
60 70 80 90 100
KYTKEGSNKP PWLNLTSKQG RSHIFEFENY PDMHACRDFI TKALAKCEEE
110 120 130 140 150
PNKLVVLTPA EQLSMAEFEL RFKLLRENSE LQKLHKQFVE SKVLTEDEFW
160 170 180 190 200
STRKKLLGKD SIRKSKQQMG LKSMMVSGIK PSTDGRTNRV TFNLTSEIIF
210 220 230 240 250
QIFAEKPAVR QAFINYVPKK MTEKDFWTKY FRAEYLYSTK NTAVAAAEAA
260 270 280 290 300
EDEELAVFLK PDEILAQEAR QKMRRVDPTL DMDADEGDDY THLMDHGIQR
310 320 330 340 350
DGTNDIIEPQ NDQLKRSLLQ DLNRHAAVVL EGRCINVQSE DTRIVAEALT
360 370 380 390 400
RAKQVSKADG EITKDANQER LERMSRATEM EDLQAPQNFP LAPLSIKDPR
410 420 430 440 450
DYFESQQGNI LSEPRGAKAS KRNVHEAYGL LKESILVIRM TGLSDPLIKP
460 470 480 490 500
EVSFEVFSSL TRTISTAKNI LGKNPQESFL DRLPKSTKDE VIHHWTSIQE
510 520 530 540 550
LVRHFWSSYP ITTTYLSTKV GKLKDAMSNT YSLLDAMKQS VQSDLRHQVS
560 570
LLVRPMQQAL DAAFQHYESD LQRRTAKIT
Length:579
Mass (Da):66,386
Last modified:March 8, 2011 - v2
Checksum:iCF2071FDF0448608
GO
Isoform 2 (identifier: Q9M322-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     316-332: RSLLQDLNRHAAVVLEG → SIKNSHQMTSQQIVDEG
     333-579: Missing.

Show »
Length:332
Mass (Da):38,354
Checksum:iCB011A7D504385B9
GO
Isoform 3 (identifier: Q9M322-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-335: Missing.
     336-346: NVQSEDTRIVA → MYFGPLLLVLG

Show »
Length:244
Mass (Da):27,680
Checksum:i0E8DC2533E93A38D
GO

Sequence cautioni

The sequence CAB71072 differs from that shown. Reason: Erroneous gene model prediction.Curated

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0407421 – 335Missing in isoform 3. 1 PublicationAdd BLAST335
Alternative sequenceiVSP_040743316 – 332RSLLQ…VVLEG → SIKNSHQMTSQQIVDEG in isoform 2. 1 PublicationAdd BLAST17
Alternative sequenceiVSP_040744333 – 579Missing in isoform 2. 1 PublicationAdd BLAST247
Alternative sequenceiVSP_040745336 – 346NVQSEDTRIVA → MYFGPLLLVLG in isoform 3. 1 PublicationAdd BLAST11

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL132962 Genomic DNA Translation: CAB71072.1 Sequence problems.
CP002686 Genomic DNA Translation: AEE80200.1
AK176589 mRNA Translation: BAD44352.1
BT021122 mRNA Translation: AAX22257.1
PIRiT47934
RefSeqiNP_191701.4, NM_116007.5 [Q9M322-1]
UniGeneiAt.50300

Genome annotation databases

EnsemblPlantsiAT3G61420.1; AT3G61420.1; AT3G61420 [Q9M322-1]
GeneIDi825315
GrameneiAT3G61420.1; AT3G61420.1; AT3G61420 [Q9M322-1]
KEGGiath:AT3G61420

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiTFB1C_ARATH
AccessioniPrimary (citable) accession number: Q9M322
Secondary accession number(s): Q5BIV2, Q67Y79
Entry historyiIntegrated into UniProtKB/Swiss-Prot: March 8, 2011
Last sequence update: March 8, 2011
Last modified: April 25, 2018
This is version 99 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome