ID   RPOC2_CHLRE             Reviewed;        3120 AA.
AC   Q7PCJ6; B7U1I7; Q32064; Q8HTL4;
DT   16-JAN-2004, integrated into UniProtKB/Swiss-Prot.
DT   15-DEC-2003, sequence version 1.
DT   03-AUG-2022, entry version 88.
DE   RecName: Full=DNA-directed RNA polymerase subunit beta'' {ECO:0000255|HAMAP-Rule:MF_01324};
DE            EC=2.7.7.6 {ECO:0000255|HAMAP-Rule:MF_01324};
DE   AltName: Full=PEP {ECO:0000255|HAMAP-Rule:MF_01324};
DE   AltName: Full=Plastid-encoded RNA polymerase subunit beta'' {ECO:0000255|HAMAP-Rule:MF_01324};
DE            Short=RNA polymerase subunit beta'' {ECO:0000255|HAMAP-Rule:MF_01324};
GN   Name=rpoC2 {ECO:0000255|HAMAP-Rule:MF_01324};
OS   Chlamydomonas reinhardtii (Chlamydomonas smithii).
OG   Plastid; Chloroplast.
OC   Eukaryota; Viridiplantae; Chlorophyta; core chlorophytes; Chlorophyceae;
OC   CS clade; Chlamydomonadales; Chlamydomonadaceae; Chlamydomonas.
OX   NCBI_TaxID=3055;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=CC-503;
RX   PubMed=19473533; DOI=10.1186/1471-2148-9-120;
RA   Smith D.R., Lee R.W.;
RT   "Nucleotide diversity of the Chlamydomonas reinhardtii plastid genome:
RT   addressing the mutational-hazard hypothesis.";
RL   BMC Evol. Biol. 9:120-120(2009).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-1092 AND 1093-3120.
RX   PubMed=1617738; DOI=10.1007/bf00351659;
RA   Fong S.E., Surzycki S.J.;
RT   "Chloroplast RNA polymerase genes of Chlamydomonas reinhardtii exhibit an
RT   unusual structure and arrangement.";
RL   Curr. Genet. 21:485-497(1992).
RN   [3]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1093-3120.
RA   Nuotio S., Purton S.;
RT   "The chloroplast rpoC2 gene of Chlamydomonas reinhardtii.";
RL   Submitted (MAY-1996) to the EMBL/GenBank/DDBJ databases.
RN   [4]
RP   IDENTIFICATION, AND COMPLETE PLASTID GENOME.
RX   PubMed=12417694; DOI=10.1105/tpc.006155;
RA   Maul J.E., Lilly J.W., Cui L., dePamphilis C.W., Miller W., Harris E.H.,
RA   Stern D.B.;
RT   "The Chlamydomonas reinhardtii plastid chromosome: islands of genes in a
RT   sea of repeats.";
RL   Plant Cell 14:2659-2679(2002).
CC   -!- FUNCTION: DNA-dependent RNA polymerase catalyzes the transcription of
CC       DNA into RNA using the four ribonucleoside triphosphates as substrates.
CC       {ECO:0000255|HAMAP-Rule:MF_01324}.
CC   -!- CATALYTIC ACTIVITY:
CC       Reaction=a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate +
CC         RNA(n+1); Xref=Rhea:RHEA:21248, Rhea:RHEA-COMP:14527, Rhea:RHEA-
CC         COMP:17342, ChEBI:CHEBI:33019, ChEBI:CHEBI:61557, ChEBI:CHEBI:140395;
CC         EC=2.7.7.6; Evidence={ECO:0000255|HAMAP-Rule:MF_01324};
CC   -!- COFACTOR:
CC       Name=Zn(2+); Xref=ChEBI:CHEBI:29105;
CC         Evidence={ECO:0000255|HAMAP-Rule:MF_01324};
CC       Note=Binds 1 Zn(2+) ion per subunit. {ECO:0000255|HAMAP-Rule:MF_01324};
CC   -!- SUBUNIT: In plastids the minimal PEP RNA polymerase catalytic core is
CC       composed of four subunits: alpha, beta, beta', and beta''. When a
CC       (nuclear-encoded) sigma factor is associated with the core the
CC       holoenzyme is formed, which can initiate transcription.
CC       {ECO:0000255|HAMAP-Rule:MF_01324}.
CC   -!- SUBCELLULAR LOCATION: Plastid, chloroplast {ECO:0000255|HAMAP-
CC       Rule:MF_01324}.
CC   -!- MISCELLANEOUS: The N-terminal and C-terminal regions are transcribed;
CC       however the middle region cannot be amplified by RT-PCR. Thus it is not
CC       clear which parts of this protein are expressed.
CC   -!- SIMILARITY: Belongs to the RNA polymerase beta' chain family. RpoC2
CC       subfamily. {ECO:0000255|HAMAP-Rule:MF_01324}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=Ref.3; Type=Miscellaneous discrepancy; Note=Sequencing errors.; Evidence={ECO:0000305};
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DR   EMBL; FJ423446; ACJ50134.1; -; Genomic_DNA.
DR   EMBL; AY162826; AAN60106.1; -; Genomic_DNA.
DR   EMBL; U57326; AAB01997.1; -; Genomic_DNA.
DR   EMBL; BK000554; DAA00948.1; -; Genomic_DNA.
DR   PIR; S26875; S26875.
DR   PIR; T08025; T08025.
DR   RefSeq; NP_958403.1; NC_005353.1.
DR   STRING; 3055.DAA00948; -.
DR   PaxDb; Q7PCJ6; -.
DR   PRIDE; Q7PCJ6; -.
DR   GeneID; 2716998; -.
DR   KEGG; cre:ChreCp047; -.
DR   eggNOG; ENOG502QPYA; Eukaryota.
DR   HOGENOM; CLU_225737_0_0_1; -.
DR   InParanoid; Q7PCJ6; -.
DR   OrthoDB; 731145at2759; -.
DR   Proteomes; UP000006906; Chloroplast.
DR   GO; GO:0009507; C:chloroplast; IEA:UniProtKB-SubCell.
DR   GO; GO:0000428; C:DNA-directed RNA polymerase complex; IEA:UniProtKB-KW.
DR   GO; GO:0003677; F:DNA binding; IEA:UniProtKB-UniRule.
DR   GO; GO:0003899; F:DNA-directed 5'-3' RNA polymerase activity; IEA:UniProtKB-UniRule.
DR   GO; GO:0008270; F:zinc ion binding; IEA:UniProtKB-UniRule.
DR   GO; GO:0006351; P:transcription, DNA-templated; IEA:UniProtKB-UniRule.
DR   Gene3D; 1.10.132.30; -; 1.
DR   Gene3D; 1.10.274.100; -; 1.
DR   HAMAP; MF_01324; RNApol_bact_RpoC2; 1.
DR   InterPro; IPR012756; DNA-dir_RpoC2_beta_pp.
DR   InterPro; IPR045867; DNA-dir_RpoC_beta_prime.
DR   InterPro; IPR042102; RNA_pol_Rpb1_3_sf.
DR   InterPro; IPR007083; RNA_pol_Rpb1_4.
DR   InterPro; IPR007081; RNA_pol_Rpb1_5.
DR   InterPro; IPR038120; Rpb1_funnel_sf.
DR   PANTHER; PTHR19376; PTHR19376; 1.
DR   Pfam; PF05000; RNA_pol_Rpb1_4; 1.
DR   Pfam; PF04998; RNA_pol_Rpb1_5; 1.
DR   TIGRFAMs; TIGR02388; rpoC2_cyan; 1.
PE   2: Evidence at transcript level;
KW   Chloroplast; DNA-directed RNA polymerase; Metal-binding;
KW   Nucleotidyltransferase; Plastid; Reference proteome; Transcription;
KW   Transferase; Zinc.
FT   CHAIN           1..3120
FT                   /note="DNA-directed RNA polymerase subunit beta''"
FT                   /id="PRO_0000067919"
FT   REGION          595..1130
FT                   /note="Insert-1"
FT   REGION          1796..2346
FT                   /note="Insert-2"
FT   REGION          2422..2610
FT                   /note="Insert-3"
FT   REGION          2726..2801
FT                   /note="Insert-4"
FT   REGION          2856..2996
FT                   /note="Insert-5"
FT   REGION          2926..2957
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        2926..2945
FT                   /note="Polar residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   BINDING         323
FT                   /ligand="Zn(2+)"
FT                   /ligand_id="ChEBI:CHEBI:29105"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_01324"
FT   BINDING         396
FT                   /ligand="Zn(2+)"
FT                   /ligand_id="ChEBI:CHEBI:29105"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_01324"
FT   BINDING         403
FT                   /ligand="Zn(2+)"
FT                   /ligand_id="ChEBI:CHEBI:29105"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_01324"
FT   BINDING         406
FT                   /ligand="Zn(2+)"
FT                   /ligand_id="ChEBI:CHEBI:29105"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_01324"
FT   VARIANT         793..794
FT                   /note="NA -> KP (in strain: CC-503)"
FT   VARIANT         1489
FT                   /note="R -> A (in strain: CC-503)"
SQ   SEQUENCE   3120 AA;  357789 MW;  16249876CC666781 CRC64;
     MNIFFQRKLV KYFGNIKKKK HYLTVSEECN HYVFVKKTYV SSVFLKSLNK VNKTCNTNSG
     ILYNQYSLGY INMHKQLPSL IRNKSKTIGN YGVAHPSRLV KCLVTKNATA PFFNFTFDKG
     RLKNLVSWTL ENYGQYKTVE LLEQLKKTGF EYATKAGISL GLDDLKIPPK KKILLLEAEQ
     LTKLTIHQYQ RGDITAVERF QRLIDTWHRT SEQLKQEVIN YFEETDILNP VYMMAFSGAR
     GNISQVRQLV GMRGLMSDPQ GQIIDFPIQS NFREGLTLTE YIISSYGARK GIVDTALRTA
     NAGYLTRRLV DVAQHVIISH YDCGTHKGIF LTDMKEGNKT IVSAQSRIIG RVLARDIYKP
     NSTITIAKRN QEISTDVAFE IGKVTNRIFV RSALTCNTTK LLCQLCYGWS LAQGNLVSVG
     EAVGVIAAQS IGEPGTQLTM RTFHTGGVFS GDVSDEIRAP YNGFVYYDNK IPGILIRTLD
     GKILFLTKSE GTLIFTADPN FNKPQALTDS FLNSGHGEKE KYEIKKYKIP AYTLLFIRNG
     ESVLQKQVLA QITMISTKPN MRDTAELVIK AELEGLFYAK NLQVQKKILG PKPKFIGEGK
     QNVLLDPKAM EIIVKARGWN FAWVLSGKRY EFPLLLKSFA SSGDLITPNT IMAKHNLQLS
     SPFLNVGTAL QVGNSTDIPK LPLLGATSKF RAMSGVLTSS IVRRYPTKIN SSSRPKVNQF
     GKSNLFYTQV LQNKVNALNG EVDSYSETAK LPYWKNLNLK FVQKLNLSKF FKQYNLKNKT
     KTKLAFYSLV QANALQASKL DSFKANTFQS KQLGRPIFIY RHCLLTKESN KKTVKLIHNI
     QLQQSVLFLK IKKIKFYKMG YFQLVNSNKT AFLVSLSHNK NRLTLYHNKF NYNNSYNDII
     VLPTSLTQDI SSKKQIALKR FKPAYNLFQW FYPSLIKPSS KEAQNLTVQQ VEFFNAREQM
     HFNSRYSKTD FVQLLQNPFK LDFNKALHRP LCISESYKEI PTGEVSISPQ NSVNLPMNTF
     FNTDGVPDKK PNYTNMYAFW LKQQVLKSYK KRYKKYKLTS ILKSHLSDKI YLPASVELQH
     QSQQNNLLSL TKEFKALNSS KYLKNNQLQS RPLLYKQEKL LKTLVLKKWF KSNLLYVNSA
     ISKEENMDGS STQMSAHSLP KRQRKGAKVS KINRFLKIDN YIKQLTYFKT SKIMRIKHSF
     NSLRVDFKFT SSKLVCPKRK RNLQIVCTLR GEEQTSVRES SVTHVNNLIC SSKYKRSIRL
     QNDSHLFTTT KKAKVPFTGY SDSHQAGKVL QSSQISSTKP KTQSSFTFFE YFKLKLAQSG
     TKAILKHFKS LKAVNISKVS MDQSRNKGFN NWGKSSSECL NTSLGDKQAL YFKTKTEANL
     QLLTLVLENF YRKKQFANLL AKNLTILNKN LKLKKNHVHF LLYYYNKLSV QKPNAIFLLT
     HMLAKANKIQ ISYSYVVPTS PKSKLNLDRG NLTTTNQKNV ASLGGYQPRS AGTKYYSEGI
     RNRTRKNNKS SMTKITKIFN QLKLDTQFVI ILLSPHKLLH HSHQLPQNTL GIYDKFNSNF
     EMAKVTLLTH PLWFNQFQMK SIKEVGNKFI NTRNNSLLEN YVILLLSNNY VFNFLSIKSE
     QINLPEEQES NLSLQEYKSP ANCQEKALPS DNKKIIFDLK KLQHIVLTEQ YKNNLRWVKN
     KKPRFLPKDI DINTLEVNLD RIKPKNKLSN LNPTQQLQLS NSLLEFVKTI KINPTDLAKV
     YSGSANTVMS IENCQPSLEV SNTFFLKTQK LLKLINKTKH SIALNQTKFI NTSLLKGHLV
     AYARPVFIIT NKAEPFIAKQ KKDLLLLPKN ATINVLIKPQ QEKNSLNKAI FPLGGNAANN
     HSIFVSPNTN KLANPNVSYL KKHIYFNQMP FFDSPFRNAS YLFSYTENSI KPLTKVDFMH
     SFAQKNHKLL PESEREKRLQ FKALHIPKQP CLNICFKSNS NLIFNSKTTN SLVIRKTTTN
     YKYNIDLSEG VDFKKLKTNM FSARKCNNFK LDTALESKLF KGRPTLLNYK NVVTQTNYFS
     PFEGELLATK TYKNYLDLNP YQSLKVGLMQ LNTSSALATL VPKTKRAGNK SSKQKIKLNQ
     GELSTELGST IPQSGKHKTK TEKMRMAMFK YYLKTINSQK IIGNKGWSRF NLILTKKDFI
     TLKYNNTLYP NFTIFSEIQK HWQPRIQMTK PIRPISYDEV CLNYLFSEEI TNQVKLQTLA
     KLNKEIHFNK SYHFNLKNRW LKQKLVINAS TSKSTSSLLT NIHMDQGEDK KTSVGVSLKL
     PAIYLCEEEG LHTNLFIHKA QRLLYKIKII LSEKALNVEH YSWNKNSSLQ KTFGYQNGII
     QAKSLLHTLP TNLNYNLKWI NYKQKNIFTT NKVGFFFLKG NTFFNTSQKL FNKKITKQTT
     FLNATIYNFG RNNKNNLISY NNSNFLENTH FVDLSLCLEL QKIYLNKNYL NLKPILDKTI
     HCQKPTKVLF KKSGFSKKQH YYLEFLNTKN HRRLIGLKEF NDYHMSYSKS QTKEMSNFID
     SYYFVKPINM DCAHYIKHEL VLYNDLITHF ASLNLYISRE HGLKSLSAFF INILKIFITS
     NQSQISLAPI GIDKYTNIYI PEGEGEKDMT KNVFQVIKKS GQLIQMNKEK MTLRLGQPLV
     ISPRSTIHAT HGDFIRYKTP VVTLTYQQLK TGDIVQGIPK IEQLFEARTT KRGRLFRDNV
     TNLLTGLFLK YFIKSTYLLR KTMIGFSKKR WKKSIKYTLP VNKQPNMPRV NHTLNTTVGT
     ELGRQSKTKV DKNKHSIAIN KNLNYSNFIN NKQNQTIILA LALQWAVKQS FYKIQQIIVD
     GILRVYRSQG VSIADKHVEI VVKQMTSKVR IINSNASKMS EYMFSLDTIK AGEMPETDLP
     EEEVSLQQNK AVSKQNVVAQ TGKKRKKRLR KSKLSERDVI TTKRTEGIDS SKIPSSNIPE
     GKVTQNNKRK STRKNVSLAD RELKTRNTLS NTTKPIQISQ VFEHKVLNQL LSNNLDGPTG
     LFPGEIVDID FVENINTFLL KTASVDRASR ETLSTDPLNP NNQVAFAIEP IKYEPIVLGI
     TRASLEVESF LSAASFQQTT RVLSQAALYK KKDFLKGLKE NIIIGNLIPA GTGFLSSLNI