ID RAD4_ARATH Reviewed; 865 AA.
AC Q8W489;
DT 22-JUL-2015, integrated into UniProtKB/Swiss-Prot.
DT 01-MAR-2002, sequence version 1.
DT 24-JAN-2024, entry version 132.
DE RecName: Full=DNA repair protein RAD4 {ECO:0000312|EMBL:AED92319.1};
GN Name=RAD4; OrderedLocusNames=At5g16630 {ECO:0000312|Araport:AT5G16630};
GN ORFNames=MTG13.7 {ECO:0000312|EMBL:AAL32833.1};
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=9501997; DOI=10.1093/dnares/4.6.401;
RA Nakamura Y., Sato S., Kaneko T., Kotani H., Asamizu E., Miyajima N.,
RA Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 5. III. Sequence
RT features of the regions of 1,191,918 bp covered by seventeen physically
RT assigned P1 clones.";
RL DNA Res. 4:401-414(1997).
RN [2]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RX PubMed=14593172; DOI=10.1126/science.1088305;
RA Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M.,
RA Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G.,
RA Liu S.X., Lam B., Sakano H., Wu T., Yu G., Miranda M., Quach H.L.,
RA Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C.,
RA Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J.,
RA Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A.,
RA Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C.,
RA Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X.,
RA Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M.,
RA Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K.,
RA Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A.,
RA Ecker J.R.;
RT "Empirical analysis of transcriptional activity in the Arabidopsis
RT genome.";
RL Science 302:842-846(2003).
RN [4]
RP INTERACTION WITH CML19.
RX PubMed=16786311; DOI=10.1007/s11103-006-0016-9;
RA Liang L., Flury S., Kalck V., Hohn B., Molinier J.;
RT "CENTRIN2 interacts with the Arabidopsis homolog of the human XPC protein
RT (AtRAD4) and contributes to efficient synthesis-dependent repair of bulky
RT DNA lesions.";
RL Plant Mol. Biol. 61:345-356(2006).
RN [5]
RP FUNCTION, DISRUPTION PHENOTYPE, SUBCELLULAR LOCATION, AND INTERACTION WITH
RP RAD23B AND PTAC12/HMR/PAP5.
RC STRAIN=cv. Columbia;
RX PubMed=29283431; DOI=10.3390/genes9010008;
RA Lahari T., Lazaro J., Schroeder D.F.;
RT "RAD4 and RAD23/HMR contribute to Arabidopsis UV tolerance.";
RL Genes (Basel) 9:0-0(2017).
CC -!- FUNCTION: Essential protein (PubMed:29283431). May have a role in the
CC nucleotide excision repair (NER) pathway (Probable). Promotes UV
CC tolerance via dark repair mechanism (nucleotide excision repair)
CC (PubMed:29283431). {ECO:0000269|PubMed:29283431,
CC ECO:0000305|PubMed:16786311}.
CC -!- SUBUNIT: Interacts with CML19. Calcium is required for this
CC interaction. Binds to RAD23B and PTAC12/HMR/PAP5 (PubMed:29283431).
CC {ECO:0000269|PubMed:16786311, ECO:0000269|PubMed:29283431}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00768,
CC ECO:0000269|PubMed:29283431}.
CC -!- DISRUPTION PHENOTYPE: Probably lethal. {ECO:0000269|PubMed:29283431}.
CC -!- SIMILARITY: Belongs to the XPC family. {ECO:0000305}.
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DR EMBL; AB008270; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; CP002688; AED92319.1; -; Genomic_DNA.
DR EMBL; CP002688; AED92320.1; -; Genomic_DNA.
DR EMBL; AY062755; AAL32833.1; -; mRNA.
DR EMBL; BT010359; AAQ56802.1; -; mRNA.
DR RefSeq; NP_001031894.1; NM_001036817.3.
DR RefSeq; NP_197166.2; NM_121669.3.
DR AlphaFoldDB; Q8W489; -.
DR SMR; Q8W489; -.
DR STRING; 3702.Q8W489; -.
DR PaxDb; 3702-AT5G16630-2; -.
DR ProteomicsDB; 236703; -.
DR EnsemblPlants; AT5G16630.1; AT5G16630.1; AT5G16630.
DR EnsemblPlants; AT5G16630.2; AT5G16630.2; AT5G16630.
DR GeneID; 831525; -.
DR Gramene; AT5G16630.1; AT5G16630.1; AT5G16630.
DR Gramene; AT5G16630.2; AT5G16630.2; AT5G16630.
DR KEGG; ath:AT5G16630; -.
DR Araport; AT5G16630; -.
DR TAIR; AT5G16630; RAD4.
DR eggNOG; KOG2179; Eukaryota.
DR HOGENOM; CLU_012473_0_0_1; -.
DR InParanoid; Q8W489; -.
DR OMA; FQAKHLG; -.
DR OrthoDB; 181129at2759; -.
DR PhylomeDB; Q8W489; -.
DR PRO; PR:Q8W489; -.
DR Proteomes; UP000006548; Chromosome 5.
DR ExpressionAtlas; Q8W489; baseline and differential.
DR Genevisible; Q8W489; AT.
DR GO; GO:0009507; C:chloroplast; HDA:TAIR.
DR GO; GO:0005634; C:nucleus; IDA:UniProtKB.
DR GO; GO:0003684; F:damaged DNA binding; IEA:InterPro.
DR GO; GO:0000724; P:double-strand break repair via homologous recombination; IMP:UniProtKB.
DR GO; GO:0006289; P:nucleotide-excision repair; IMP:UniProtKB.
DR GO; GO:0009411; P:response to UV; IMP:UniProtKB.
DR GO; GO:0009650; P:UV protection; IMP:UniProtKB.
DR Gene3D; 2.20.20.110; Rad4, beta-hairpin domain BHD1; 1.
DR Gene3D; 3.30.70.2460; Rad4, beta-hairpin domain BHD3; 1.
DR Gene3D; 3.90.260.10; Transglutaminase-like; 1.
DR InterPro; IPR018327; BHD_2.
DR InterPro; IPR004583; DNA_repair_Rad4.
DR InterPro; IPR038765; Papain-like_cys_pep_sf.
DR InterPro; IPR018325; Rad4/PNGase_transGLS-fold.
DR InterPro; IPR018326; Rad4_beta-hairpin_dom1.
DR InterPro; IPR018328; Rad4_beta-hairpin_dom3.
DR InterPro; IPR042488; Rad4_BHD3_sf.
DR InterPro; IPR002931; Transglutaminase-like.
DR InterPro; IPR036985; Transglutaminase-like_sf.
DR PANTHER; PTHR12135:SF0; DNA REPAIR PROTEIN COMPLEMENTING XP-C CELLS; 1.
DR PANTHER; PTHR12135; DNA REPAIR PROTEIN XP-C / RAD4; 1.
DR Pfam; PF10403; BHD_1; 1.
DR Pfam; PF10404; BHD_2; 1.
DR Pfam; PF10405; BHD_3; 1.
DR Pfam; PF03835; Rad4; 1.
DR Pfam; PF01841; Transglut_core; 1.
DR SMART; SM01030; BHD_1; 1.
DR SMART; SM01031; BHD_2; 1.
DR SMART; SM01032; BHD_3; 1.
DR SUPFAM; SSF54001; Cysteine proteinases; 1.
PE 1: Evidence at protein level;
KW DNA damage; DNA repair; Nucleus; Reference proteome.
FT CHAIN 1..865
FT /note="DNA repair protein RAD4"
FT /id="PRO_0000433481"
FT REGION 21..57
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 75..101
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 290..318
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 804..833
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 34..41
FT /note="Nuclear localization signal"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00768"
FT COMPBIAS 28..55
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 865 AA; 96285 MW; BA1607F048A5F33C CRC64;
MKSRSESKNC RLAQASRVAV NKVLDKSSAR GSRGKKKQDD NCDSAKRDKG VNGKGKQALD
ARLIDNVLED RGCGNVDDDE MNDSDWEDCP IPSLDSTVDD NNVDDTRELT IEFDDDVPDA
KKQKNAYRAT AEDKVRAELV HKVHLLCLLA RGRIVDSACN DPLIQAALLS LLPSYLTKVS
NLEKVTVKDI APLLRWVREN FSVSCSPSSE KSFRTSLAFA LESRKGTAEE LAALAVALLR
ALKLTTRFVS ILDVASLKPG ADRNESSGQN RAKMKHGIFR TSTLMVPKQQ AISSYPKKSS
SHVKNKSPFE KPQLGNPLGS DQVQDNAVNS SCEAGMSIKS DGTRRKGDVE FERQIAMALS
ATADNQQSSQ VNNTKKVREI TKISNSSSVS DQVISTAFGS KKVDSPLCWL EVYCNGENMD
GKWVHVDAVN GMIDAEQNIE AAAAACKTVL RYVVAFAAGG AKDVTRRYCT KWHTISSKRV
SSVWWDMVLA PLVHLESGAT HDEDIALRNF NGLNPVSSRA SSSSSSFGIR SALEDMELAT
RALTESLPTN QQAYKSHEIY AIEKWLHKNQ ILHPKGPVLG FCSGHPVYPR TCVQTLKTKE
RWLRDGLQLK ANEVPSKILK RNSKFKKVKD FEDGDNNIKG GSSCMELYGK WQMEPLCLPP
AVNGIVPKNE RGQVDVWSEK CLPPGTVHLR FPRIFAVAKR FGIDYAPAMV GFEYRSGGAT
PIFEGIVVCT EFKDTILEAY AEEQEKKEEE ERRRNEAQAA SRWYQLLSSI LTRERLKNRY
ANNSNDVEAK SLEVNSETVV KAKNVKAPEK QRVAKRGEKS RVRKSRNEDE SHEHVFLDEE
ETFDEETSVK TKRCKCGFSV EVEQM
//
