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Protein

TFIIH basal transcription factor complex helicase XPB subunit

Gene

Ercc3

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

ATP-dependent 3'-5' DNA helicase, component of the core-TFIIH basal transcription factor, involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. Acts by opening DNA either around the RNA transcription start site or the DNA damage (By similarity).By similarity

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi341 – 3488ATPPROSITE-ProRule annotation

GO - Molecular functioni

  • 3'-5' DNA helicase activity Source: Ensembl
  • ATPase activity Source: RGD
  • ATP binding Source: RGD
  • ATP-dependent DNA helicase activity Source: RGD
  • dATP binding Source: RGD
  • DNA binding Source: UniProtKB-KW
  • GTP binding Source: RGD
  • peptide binding Source: RGD
  • RNA polymerase II carboxy-terminal domain kinase activity Source: RGD

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Biological processi

DNA damage, DNA repair, Transcription, Transcription regulation

Keywords - Ligandi

ATP-binding, DNA-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiR-RNO-112382. Formation of RNA Pol II elongation complex.
R-RNO-113418. Formation of the Early Elongation Complex.
R-RNO-5696395. Formation of Incision Complex in GG-NER.
R-RNO-5696400. Dual Incision in GG-NER.
R-RNO-674695. RNA Polymerase II Pre-transcription Events.
R-RNO-6781823. Formation of TC-NER Pre-Incision Complex.
R-RNO-6782135. Dual incision in TC-NER.
R-RNO-6782210. Gap-filling DNA repair synthesis and ligation in TC-NER.
R-RNO-72086. mRNA Capping.
R-RNO-73762. RNA Polymerase I Transcription Initiation.
R-RNO-73772. RNA Polymerase I Promoter Escape.
R-RNO-73776. RNA Polymerase II Promoter Escape.
R-RNO-73777. RNA Polymerase I Chain Elongation.
R-RNO-73779. RNA Polymerase II Transcription Pre-Initiation And Promoter Opening.
R-RNO-73863. RNA Polymerase I Transcription Termination.
R-RNO-75953. RNA Polymerase II Transcription Initiation.
R-RNO-75955. RNA Polymerase II Transcription Elongation.
R-RNO-76042. RNA Polymerase II Transcription Initiation And Promoter Clearance.
R-RNO-77075. RNA Pol II CTD phosphorylation and interaction with CE.

Names & Taxonomyi

Protein namesi
Recommended name:
TFIIH basal transcription factor complex helicase XPB subunit (EC:3.6.4.12)
Alternative name(s):
DNA excision repair protein ERCC-3
Gene namesi
Name:Ercc3
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 18

Organism-specific databases

RGDi1307139. Ercc3.

Subcellular locationi

GO - Cellular componenti

  • core TFIIH complex Source: RGD
  • holo TFIIH complex Source: UniProtKB
  • nucleus Source: RGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 782782TFIIH basal transcription factor complex helicase XPB subunitPRO_0000323742Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei34 – 341PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ4G005.
PRIDEiQ4G005.

PTM databases

PhosphoSiteiQ4G005.

Expressioni

Gene expression databases

GenevisibleiQ4G005. RN.

Interactioni

Subunit structurei

One of the 6 subunits forming the core-TFIIH basal transcription factor which associates with the CAK complex composed of CDK7, CCNH/cyclin H and MNAT1 to form the TFIIH basal transcription factor. Interacts with PUF60 (By similarity). Interacts with ATF7IP (By similarity).By similarity

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000018422.

Structurei

3D structure databases

ProteinModelPortaliQ4G005.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini328 – 489162Helicase ATP-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini543 – 703161Helicase C-terminalPROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi6 – 1813Nuclear localization signalSequence analysisAdd
BLAST
Motifi442 – 4454DEVH box

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi20 – 289Asp/Glu-rich (acidic)
Compositional biasi256 – 2649Asp/Glu-rich (acidic)
Compositional biasi697 – 7004Asp/Glu-rich (acidic)
Compositional biasi720 – 7278Asp/Glu-rich (acidic)

Sequence similaritiesi

Belongs to the helicase family. RAD25/XPB subfamily.Curated
Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG1123. Eukaryota.
COG1061. LUCA.
GeneTreeiENSGT00390000002204.
HOGENOMiHOG000160172.
HOVERGENiHBG051499.
InParanoidiQ4G005.
KOiK10843.
OMAiDIGEYNG.
OrthoDBiEOG7DNNTM.
PhylomeDBiQ4G005.
TreeFamiTF101233.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR032438. 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.
[Graphical view]
PfamiPF16203. ERCC3_RAD25_C. 1 hit.
PF13625. Helicase_C_3. 1 hit.
PF04851. ResIII. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 3 hits.
TIGRFAMsiTIGR00603. rad25. 1 hit.
PROSITEiPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q4G005-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGKRDRVDRD KKKSKKRQYE EEEEDEDDAP GNESQEAVPS AAGKQVDESS
60 70 80 90 100
TKVDEYGAKD YRQQMPLKGD HTSRPLWVAP DGHIFLEAFS PVYKYAQDFL
110 120 130 140 150
VAIAEPVCRP THVHEYKLTA YSLYAAVSVG LQTSDITEYL RKLSKTGVPD
160 170 180 190 200
GIIQFIKLCT VSYGKVKLVL KHNRYFVESS HPDVIQHLLQ DPVIRECRLR
210 220 230 240 250
NAEGEATELI TETFTSKSAI SKTVEGSGGA STSQGVDAQA KSDIPKDLFD
260 270 280 290 300
FYEQMDKDEE EEEETQTVSF EVKQEMIEEL QKRCICLEYP LLAEYDFRND
310 320 330 340 350
SLNPDINIDL KPTAVLRPYQ EKSLRKMFGN GRARSGVIVL PCGAGKSLVG
360 370 380 390 400
VTAACTVRKR CLVLGNSAVS VEQWKAQFKM WSTIDDSQIC RFTSDAKDKP
410 420 430 440 450
IGCSIAISTY SMLGHTTKRS WEAERVMEWL KTQEWGLMIL DEVHTIPAKM
460 470 480 490 500
FRRVLTIVQA HCKLGLTATL VREDDKIVDL NFLIGPKLYE ANWMELQNNG
510 520 530 540 550
YIAKVQCAEV WCPMSPEFYR EYVAIKTKKR ILLYTMNPNK FRACQFLIKF
560 570 580 590 600
HERRNDKIIV FADNVFALKE YAIRLNKPYI YGPTSQGERM QILQNFKHNP
610 620 630 640 650
KINTIFISKV GDTSFDLPEA NVLIQISSHG GSRRQEAQRL GRVLRAKKGM
660 670 680 690 700
VAEEYNAFFY SLVSQDTQEM AYSTKRQRFL VDQGYSFKVI TKLAGMEEEE
710 720 730 740 750
LAFSTKEEQQ QLLQKVLAAT DLDAEEEVVA GEFGSRSGQA SRRFGTMSSL
760 770 780
SGADDTVYME YHSSRNKAST KHVHPLFKRF RK
Length:782
Mass (Da):89,099
Last modified:August 30, 2005 - v1
Checksum:i7548181D98079B31
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC098856 mRNA. Translation: AAH98856.1.
RefSeqiNP_001026814.1. NM_001031644.1.
UniGeneiRn.44012.

Genome annotation databases

EnsembliENSRNOT00000018422; ENSRNOP00000018422; ENSRNOG00000013180.
GeneIDi291703.
KEGGirno:291703.
UCSCiRGD:1307139. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC098856 mRNA. Translation: AAH98856.1.
RefSeqiNP_001026814.1. NM_001031644.1.
UniGeneiRn.44012.

3D structure databases

ProteinModelPortaliQ4G005.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000018422.

PTM databases

PhosphoSiteiQ4G005.

Proteomic databases

PaxDbiQ4G005.
PRIDEiQ4G005.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000018422; ENSRNOP00000018422; ENSRNOG00000013180.
GeneIDi291703.
KEGGirno:291703.
UCSCiRGD:1307139. rat.

Organism-specific databases

CTDi2071.
RGDi1307139. Ercc3.

Phylogenomic databases

eggNOGiKOG1123. Eukaryota.
COG1061. LUCA.
GeneTreeiENSGT00390000002204.
HOGENOMiHOG000160172.
HOVERGENiHBG051499.
InParanoidiQ4G005.
KOiK10843.
OMAiDIGEYNG.
OrthoDBiEOG7DNNTM.
PhylomeDBiQ4G005.
TreeFamiTF101233.

Enzyme and pathway databases

ReactomeiR-RNO-112382. Formation of RNA Pol II elongation complex.
R-RNO-113418. Formation of the Early Elongation Complex.
R-RNO-5696395. Formation of Incision Complex in GG-NER.
R-RNO-5696400. Dual Incision in GG-NER.
R-RNO-674695. RNA Polymerase II Pre-transcription Events.
R-RNO-6781823. Formation of TC-NER Pre-Incision Complex.
R-RNO-6782135. Dual incision in TC-NER.
R-RNO-6782210. Gap-filling DNA repair synthesis and ligation in TC-NER.
R-RNO-72086. mRNA Capping.
R-RNO-73762. RNA Polymerase I Transcription Initiation.
R-RNO-73772. RNA Polymerase I Promoter Escape.
R-RNO-73776. RNA Polymerase II Promoter Escape.
R-RNO-73777. RNA Polymerase I Chain Elongation.
R-RNO-73779. RNA Polymerase II Transcription Pre-Initiation And Promoter Opening.
R-RNO-73863. RNA Polymerase I Transcription Termination.
R-RNO-75953. RNA Polymerase II Transcription Initiation.
R-RNO-75955. RNA Polymerase II Transcription Elongation.
R-RNO-76042. RNA Polymerase II Transcription Initiation And Promoter Clearance.
R-RNO-77075. RNA Pol II CTD phosphorylation and interaction with CE.

Miscellaneous databases

NextBioi633050.
PROiQ4G005.

Gene expression databases

GenevisibleiQ4G005. RN.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR032438. 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.
[Graphical view]
PfamiPF16203. ERCC3_RAD25_C. 1 hit.
PF13625. Helicase_C_3. 1 hit.
PF04851. ResIII. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 3 hits.
TIGRFAMsiTIGR00603. rad25. 1 hit.
PROSITEiPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Thymus.
  2. "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues."
    Lundby A., Secher A., Lage K., Nordsborg N.B., Dmytriyev A., Lundby C., Olsen J.V.
    Nat. Commun. 3:876-876(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-34, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiERCC3_RAT
AccessioniPrimary (citable) accession number: Q4G005
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 18, 2008
Last sequence update: August 30, 2005
Last modified: May 11, 2016
This is version 96 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.