ID   CSN6_ORYSJ              Reviewed;         329 AA.
AC   Q6ZKM2; Q0J4P9; Q2A0N7;
DT   08-MAY-2019, integrated into UniProtKB/Swiss-Prot.
DT   05-JUL-2004, sequence version 1.
DT   03-AUG-2022, entry version 112.
DE   RecName: Full=COP9 signalosome complex subunit 6 {ECO:0000303|PubMed:27137867};
DE            Short=OsCSN6 {ECO:0000303|PubMed:27137867};
DE   AltName: Full=Signalosome subunit 6 {ECO:0000305};
GN   Name=CSN6 {ECO:0000303|PubMed:27137867};
GN   OrderedLocusNames=Os08g0500000 {ECO:0000312|EMBL:BAT06103.1},
GN   LOC_Os08g39070 {ECO:0000305};
GN   ORFNames=OJ1118_A06.12 {ECO:0000312|EMBL:BAD08810.1},
GN   OsJ_27828 {ECO:0000312|EMBL:EEE68946.1};
OS   Oryza sativa subsp. japonica (Rice).
OC   Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC   Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC   Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX   NCBI_TaxID=39947;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [MRNA].
RA   Sun T., Yin L.;
RT   "Profiling of microarray data for iron deficiency in rice root.";
RL   Submitted (MAR-2006) to the EMBL/GenBank/DDBJ databases.
RN   [2]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=16100779; DOI=10.1038/nature03895;
RG   International rice genome sequencing project (IRGSP);
RT   "The map-based sequence of the rice genome.";
RL   Nature 436:793-800(2005).
RN   [3]
RP   GENOME REANNOTATION.
RC   STRAIN=cv. Nipponbare;
RX   PubMed=18089549; DOI=10.1093/nar/gkm978;
RG   The rice annotation project (RAP);
RT   "The rice annotation project database (RAP-DB): 2008 update.";
RL   Nucleic Acids Res. 36:D1028-D1033(2008).
RN   [4]
RP   GENOME REANNOTATION.
RC   STRAIN=cv. Nipponbare;
RX   PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA   Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA   Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA   Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA   Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT   "Improvement of the Oryza sativa Nipponbare reference genome using next
RT   generation sequence and optical map data.";
RL   Rice 6:4-4(2013).
RN   [5]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=15685292; DOI=10.1371/journal.pbio.0030038;
RA   Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S.,
RA   Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.,
RA   Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J.,
RA   Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X.,
RA   Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y.,
RA   Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L.,
RA   Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H.,
RA   Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z.,
RA   Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L.,
RA   Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F.,
RA   Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q.,
RA   Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J.,
RA   Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M.,
RA   McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.;
RT   "The genomes of Oryza sativa: a history of duplications.";
RL   PLoS Biol. 3:266-281(2005).
RN   [6]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   STRAIN=cv. Nipponbare;
RX   PubMed=12869764; DOI=10.1126/science.1081288;
RG   The rice full-length cDNA consortium;
RT   "Collection, mapping, and annotation of over 28,000 cDNA clones from
RT   japonica rice.";
RL   Science 301:376-379(2003).
RN   [7]
RP   FUNCTION, AND INDUCTION.
RX   PubMed=27137867; DOI=10.1038/srep25485;
RA   Tan S., Liu F., Pan X.X., Zang Y.P., Jin F., Zu W.X., Qi X.T., Xiao W.,
RA   Yin L.P.;
RT   "CSN6, a subunit of the COP9 signalosome, is involved in early response to
RT   iron deficiency in Oryza sativa.";
RL   Sci. Rep. 6:25485-25485(2016).
CC   -!- FUNCTION: Component of the COP9 signalosome complex (CSN), a complex
CC       involved in various cellular and developmental processes such as
CC       photomorphogenesis and response to hormones (Probable). The CSN complex
CC       is an essential regulator of the ubiquitin (Ubl) conjugation pathway by
CC       mediating the deneddylation of the cullin subunits of SCF-type E3
CC       ligase complexes, leading to decrease the Ubl ligase activity of SCF
CC       (Probable). Involved in early response to iron deficiency
CC       (PubMed:27137867). {ECO:0000269|PubMed:27137867,
CC       ECO:0000305|PubMed:27137867}.
CC   -!- SUBUNIT: Component of the CSN complex, probably composed of CSN1, CSN2,
CC       CSN3, CSN4, CSN5, CSN6, CSN7 and CSN8. {ECO:0000250|UniProtKB:Q8W206}.
CC   -!- INDUCTION: Down-regulated during the early stage of iron deficiency (at
CC       protein level). {ECO:0000269|PubMed:27137867}.
CC   -!- SIMILARITY: Belongs to the peptidase M67A family. CSN6 subfamily.
CC       {ECO:0000305}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=BAF24066.2; Type=Erroneous initiation; Note=Extended N-terminus.; Evidence={ECO:0000305};
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DR   EMBL; AM234671; CAJ81251.1; -; mRNA.
DR   EMBL; AP003873; BAD08810.1; -; Genomic_DNA.
DR   EMBL; AP008214; BAF24066.2; ALT_INIT; Genomic_DNA.
DR   EMBL; AP014964; BAT06103.1; -; Genomic_DNA.
DR   EMBL; CM000145; EEE68946.1; -; Genomic_DNA.
DR   EMBL; AK058215; BAG86632.1; -; mRNA.
DR   RefSeq; XP_015648541.1; XM_015793055.1.
DR   AlphaFoldDB; Q6ZKM2; -.
DR   SMR; Q6ZKM2; -.
DR   STRING; 4530.OS08T0500000-01; -.
DR   PaxDb; Q6ZKM2; -.
DR   PRIDE; Q6ZKM2; -.
DR   EnsemblPlants; Os08t0500000-01; Os08t0500000-01; Os08g0500000.
DR   GeneID; 4345944; -.
DR   Gramene; Os08t0500000-01; Os08t0500000-01; Os08g0500000.
DR   KEGG; osa:4345944; -.
DR   eggNOG; KOG3050; Eukaryota.
DR   HOGENOM; CLU_027018_1_2_1; -.
DR   InParanoid; Q6ZKM2; -.
DR   OMA; DLVGWYT; -.
DR   OrthoDB; 1455324at2759; -.
DR   Proteomes; UP000000763; Chromosome 8.
DR   Proteomes; UP000007752; Chromosome 8.
DR   Proteomes; UP000059680; Chromosome 8.
DR   GO; GO:0008180; C:COP9 signalosome; IBA:GO_Central.
DR   GO; GO:0070122; F:isopeptidase activity; IEA:InterPro.
DR   GO; GO:0140492; F:metal-dependent deubiquitinase activity; IEA:InterPro.
DR   GO; GO:0000338; P:protein deneddylation; IEA:InterPro.
DR   GO; GO:1990641; P:response to iron ion starvation; IDA:UniProtKB.
DR   CDD; cd08063; MPN_CSN6; 1.
DR   InterPro; IPR000555; JAMM/MPN+_dom.
DR   InterPro; IPR037518; MPN.
DR   InterPro; IPR033859; MPN_CSN6.
DR   InterPro; IPR024969; Rpn11/EIF3F_C.
DR   Pfam; PF01398; JAB; 1.
DR   Pfam; PF13012; MitMem_reg; 1.
DR   SMART; SM00232; JAB_MPN; 1.
DR   PROSITE; PS50249; MPN; 1.
PE   1: Evidence at protein level;
KW   Reference proteome.
FT   CHAIN           1..329
FT                   /note="COP9 signalosome complex subunit 6"
FT                   /id="PRO_0000446888"
FT   DOMAIN          44..175
FT                   /note="MPN"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU01182"
SQ   SEQUENCE   329 AA;  36024 MW;  39FAF22D51B65D11 CRC64;
     MSAPSDPAVA THPQAGAAAA ASSSSGLTFK LHPLVIVNVS DHHTRVKAQA ACSGDGASSA
     AAGGQPPRVF GCVIGVQRGR TVEIFNSFEL VLDPVSGTLD RAFLEKKQEL YKKVFPDFYV
     LGWYSTGSDV RDTDMQIHKA LMDINESPVY LLLNPAINLS QKDLPVTIYE SELHVIDGSP
     QLIFVRANYT IETVEAERIS VDHVAHLKPS DGGSAATQLA AHLTGIHSAI KMLNSRVRVI
     HQYLVSMQKG DMPLDNSLLR QVSSLVRRLP AMESEKFQDD FLMEYNDTLL MTYLAMFTNC
     SSTMNELVEK FNATYERSTA RRGGRGAFM