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Protein

General transcription and DNA repair factor IIH helicase subunit XPB

Gene

repB

Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed-Annotation score: -Experimental evidence at transcript leveli

Functioni

ATP-dependent 3'-5' DNA helicase, 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. The ATPase activity of XPB/repB, but not its helicase activity, is required for DNA opening. 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. The ATP-dependent helicase activity of XPB/repB 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

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi342 – 349ATPPROSITE-ProRule annotation8

GO - Molecular functioni

GO - Biological processi

  • cellular response to DNA damage stimulus Source: dictyBase
  • nucleotide-excision repair Source: dictyBase
  • regulation of transcription, DNA-templated Source: UniProtKB-KW
  • transcription by RNA polymerase II Source: dictyBase
  • transcription initiation from RNA polymerase II promoter Source: InterPro
  • UV protection Source: dictyBase

Keywordsi

Molecular functionDNA-binding, Helicase, Hydrolase
Biological processDNA damage, DNA repair, Transcription, Transcription regulation
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

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

Names & Taxonomyi

Protein namesi
Recommended name:
General transcription and DNA repair factor IIH helicase subunit XPB (EC:3.6.4.12)
Short name:
TFIIH subunit XPB
Alternative name(s):
DNA excision repair cross-complementing protein-3 homolog
DNA repair helicase repB
DNA repair protein B
Gene namesi
Name:repB
Synonyms:ercc3
ORF Names:DDB_G0278729
OrganismiDictyostelium discoideum (Slime mold)
Taxonomic identifieri44689 [NCBI]
Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyostelidsDictyostelialesDictyosteliaceaeDictyostelium
Proteomesi
  • UP000002195 Componentsi: Chromosome 3, Unassembled WGS sequence

Organism-specific databases

dictyBaseiDDB_G0278729 repB

Subcellular locationi

GO - Cellular componenti

  • holo TFIIH complex Source: dictyBase

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003760061 – 800General transcription and DNA repair factor IIH helicase subunit XPBAdd BLAST800

Proteomic databases

PaxDbiO00835

Expressioni

Developmental stagei

Constitutively expressed at low levels throughout development.2 Publications

Inductioni

Up-regulated a dose dependent manner following exposure to both UV LIGHT and cisplatin. Unaffected by exposure to hydrogen peroxide.3 Publications

Interactioni

Subunit structurei

Component of the 7-subunit TFIIH core complex composed of XPB/repB, XPD/repD, gtf2h1, gtf2h2, gtf2h3, gtf2h4 and gtf2h5, which is active in NER. The core complex associates with the 3-subunit CDK-activating kinase (CAK) module composed of cycH/cyclin H, cdk7 and mnat1 to form the 10-subunit holoenzyme (holo-TFIIH) active in transcription.By similarity

Protein-protein interaction databases

STRINGi44689.DDB0214830

Structurei

3D structure databases

ProteinModelPortaliO00835
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini329 – 491Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST163
Domaini546 – 704Helicase C-terminalPROSITE-ProRule annotationAdd BLAST159

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi444 – 447DEVH box4

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi255 – 259Poly-Glu5

Sequence similaritiesi

Belongs to the helicase family. RAD25/XPB subfamily.Curated

Phylogenomic databases

eggNOGiKOG1123 Eukaryota
COG1061 LUCA
InParanoidiO00835
KOiK10843
OMAiTKHVHPL
PhylomeDBiO00835

Family and domain databases

CDDicd00079 HELICc, 1 hit
InterProiView protein in InterPro
IPR032438 ERCC3_RAD25_C
IPR006935 Helicase/UvrB_N
IPR014001 Helicase_ATP-bd
IPR001650 Helicase_C
IPR027417 P-loop_NTPase
IPR001161 XPB/Ssl2
IPR032830 XPB/Ssl2_N
PfamiView protein in Pfam
PF16203 ERCC3_RAD25_C, 1 hit
PF13625 Helicase_C_3, 1 hit
PF04851 ResIII, 1 hit
SMARTiView protein in SMART
SM00487 DEXDc, 1 hit
SM00490 HELICc, 1 hit
SUPFAMiSSF52540 SSF52540, 3 hits
TIGRFAMsiTIGR00603 rad25, 1 hit
PROSITEiView protein in PROSITE
PS51192 HELICASE_ATP_BIND_1, 1 hit
PS51194 HELICASE_CTER, 1 hit

Sequencei

Sequence statusi: Complete.

O00835-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSGDSNLKR RRGGNTGQSS KSYNTWTDYE EDLEESGEFN QSIKKTTNTS
60 70 80 90 100
SATLTSSEEK GSLLDYSKRC ILKQDNKSRP IWVCPDGHIF LETFSAIYKQ
110 120 130 140 150
ASDFLVAIAE PVCRPQNIHE YQLTPYSLYA AVSVGLETND IITVLGRLSK
160 170 180 190 200
LALPKEVEQF VRQCTQSYGK VKLVLQKNKY FVESAYPEVL EFLLKDSSIA
210 220 230 240 250
TARIKPTLEE SVVDPKTGFI INKEVVTGAQ ISGGLQANQS LDPVLKNDAL
260 270 280 290 300
SNLLEEEEED TVNNSDQHFH SFEIDPQQVE EVKKRCIQLD YPVLEEYDFR
310 320 330 340 350
NDTVNPNLNI DLKPTTMIRP YQEKSLSKMF GNGRARSGII VLPCGAGKSL
360 370 380 390 400
SGITAACTVK KSILVLCTSA VSVEQWKYQF KLWSNIEERQ ISKFTSDNKE
410 420 430 440 450
KISNVAGVTI TTYTMVAFGG RRSAESLKIM NEITNREWGL VLLDEVHVVP
460 470 480 490 500
AAMFRKVLTV TKAHCKLGLT ATLLREDEKI QDLNFLIGPK LYEANWLDLQ
510 520 530 540 550
KAGFLANVSC SEVWCPMTAE FYKEYLINDS QGKKKLLYTM NPNKFRACEY
560 570 580 590 600
LIRFHEQRGD KIIVFSDNVY ALQKYAKGLG RYFIYGPTSG HERMSILSKF
610 620 630 640 650
QHDPTVRTIF ISKVGDTSID IPEATVIIQV SSHYGSRRQE AQRLGRILRP
660 670 680 690 700
KPKSDGLYNA FFYSLVSKDT QEMYYSTKRQ QFLIDQGYSF KVISELPGID
710 720 730 740 750
QEVNLKYSSK QDQLDLLAQV LGEGEDSGKN EILEEDFDDI TRGAKKSKSS
760 770 780 790 800
APTVSRTTGG STRALSGGND MNYMEYQAPA IYKSIPTQHA LFKQRAKNKQ
Length:800
Mass (Da):90,257
Last modified:July 1, 1997 - v1
Checksum:i0DB636E33067B09A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U77065 Genomic DNA Translation: AAB62732.1
AAFI02000024 Genomic DNA Translation: EAL67966.1
RefSeqiXP_647819.1, XM_642727.1

Genome annotation databases

EnsemblProtistsiEAL67966; EAL67966; DDB_G0278729
GeneIDi8621779
KEGGiddi:DDB_G0278729

Similar proteinsi

Entry informationi

Entry nameiERCC3_DICDI
AccessioniPrimary (citable) accession number: O00835
Secondary accession number(s): Q54XI4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 26, 2009
Last sequence update: July 1, 1997
Last modified: March 28, 2018
This is version 130 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome
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Main funding by: National Institutes of Health