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   25-MAY-2022, entry version 125.
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).
CC   -!- FUNCTION: May have a role in the nucleotide excision repair (NER)
CC       pathway. {ECO:0000305|PubMed:16786311}.
CC   -!- SUBUNIT: Interacts with CML19. Calcium is required for this
CC       interaction. {ECO:0000269|PubMed:16786311}.
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   STRING; 3702.AT5G16630.2; -.
DR   PaxDb; Q8W489; -.
DR   PRIDE; Q8W489; -.
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; locus:2174160; AT5G16630.
DR   eggNOG; KOG2179; Eukaryota.
DR   HOGENOM; CLU_012473_0_0_1; -.
DR   InParanoid; Q8W489; -.
DR   OMA; PLTCYKY; -.
DR   OrthoDB; 750482at2759; -.
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:0005737; C:cytoplasm; IBA:GO_Central.
DR   GO; GO:0000111; C:nucleotide-excision repair factor 2 complex; IBA:GO_Central.
DR   GO; GO:0071942; C:XPC complex; IBA:GO_Central.
DR   GO; GO:0003684; F:damaged DNA binding; IBA:GO_Central.
DR   GO; GO:0003697; F:single-stranded DNA binding; IBA:GO_Central.
DR   GO; GO:0006298; P:mismatch repair; IBA:GO_Central.
DR   GO; GO:0006289; P:nucleotide-excision repair; IBA:GO_Central.
DR   Gene3D; 3.30.70.2460; -; 1.
DR   Gene3D; 3.90.260.10; -; 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; PTHR12135; 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; SSF54001; 1.
PE   1: Evidence at protein level;
KW   DNA damage; DNA repair; 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   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