ID   RPOC2_TUPAK             Reviewed;        3462 AA.
AC   Q3ZJ90;
DT   07-MAR-2006, integrated into UniProtKB/Swiss-Prot.
DT   27-SEP-2005, sequence version 1.
DT   03-AUG-2022, entry version 48.
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   Tupiella akineta (Green alga) (Pseudendoclonium akinetum).
OG   Plastid; Chloroplast.
OC   Eukaryota; Viridiplantae; Chlorophyta; Ulvophyceae; OUU clade;
OC   Ulotrichales; Tupiellaceae; Tupiella.
OX   NCBI_TaxID=160070;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=UTEX 1912;
RX   PubMed=15930151; DOI=10.1093/molbev/msi182;
RA   Pombert J.-F., Otis C., Lemieux C., Turmel M.;
RT   "The chloroplast genome sequence of the green alga Pseudendoclonium
RT   akinetum (Ulvophyceae) reveals unusual structural features and new insights
RT   into the branching order of chlorophyte lineages.";
RL   Mol. Biol. Evol. 22:1903-1918(2005).
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 coding sequence for this protein is much larger than
CC       in other plastids; the extra sequences are spread along the coding
CC       region.
CC   -!- SIMILARITY: Belongs to the RNA polymerase beta' chain family. RpoC2
CC       subfamily. {ECO:0000255|HAMAP-Rule:MF_01324}.
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DR   EMBL; AY835431; AAV80600.1; -; Genomic_DNA.
DR   RefSeq; YP_636177.1; NC_008114.1.
DR   PRIDE; Q3ZJ90; -.
DR   GeneID; 4108780; -.
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; 4.
DR   Pfam; PF05000; RNA_pol_Rpb1_4; 1.
DR   Pfam; PF04998; RNA_pol_Rpb1_5; 1.
DR   TIGRFAMs; TIGR02388; rpoC2_cyan; 1.
PE   3: Inferred from homology;
KW   Chloroplast; DNA-directed RNA polymerase; Metal-binding;
KW   Nucleotidyltransferase; Plastid; Transcription; Transferase; Zinc.
FT   CHAIN           1..3462
FT                   /note="DNA-directed RNA polymerase subunit beta''"
FT                   /id="PRO_0000225337"
FT   REGION          541..1085
FT                   /note="Insert-1"
FT   REGION          1528..1585
FT                   /note="Insert-2"
FT   REGION          1602..1699
FT                   /note="Insert-3"
FT   REGION          1938..2168
FT                   /note="Insert-4"
FT   REGION          2320..2870
FT                   /note="Insert-5"
FT   REGION          2972..3196
FT                   /note="Insert-6"
FT   BINDING         263
FT                   /ligand="Zn(2+)"
FT                   /ligand_id="ChEBI:CHEBI:29105"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_01324"
FT   BINDING         335
FT                   /ligand="Zn(2+)"
FT                   /ligand_id="ChEBI:CHEBI:29105"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_01324"
FT   BINDING         342
FT                   /ligand="Zn(2+)"
FT                   /ligand_id="ChEBI:CHEBI:29105"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_01324"
FT   BINDING         345
FT                   /ligand="Zn(2+)"
FT                   /ligand_id="ChEBI:CHEBI:29105"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_01324"
SQ   SEQUENCE   3462 AA;  400700 MW;  CEF97FEB485AA123 CRC64;
     MFIKKKKKKV SSFEFSSLRS TFSFVHWAKL KHQTSSIIEN HSDQISPIQI DFYNRPFEKG
     RLKALVSWSI SYFGEKKTVD LVENLKSIGY AYATKAGISL GIDDLKIPPS KKDYITKAEQ
     ILEFTNQDVK KGYLTSIEYF SKVIETWNKT SESLKEEVIS NFKKTDELNP VFIMAFSGAR
     GNISQVRQLT SMRGLMSDPQ GRIINFPIQS NFREGLTLTE YLISCYGARK GVVDTALRTA
     TSGYLTRRLV DVAHHVIVRG FNCGTKKGLY LSDLKKGDKI LLSLKNRIIG RRLAEDIYNS
     KKQLIATKNQ EISSNLSSLI TKNKTSIFVR SPLTCQDKNY VCQLCYGWSL ANHRLVPSGE
     AIGIIAAQSI GEPGTQLTMR TFHTGGVFSG EVTDEIKAPF RGIVFFNTSI PGKLIRTTYG
     QIAFLTKQES FLTLIPENPK QQWLDSSKKL GFSKQKEPDF QKDSLFLQKK VEFKIPAYTL
     LFVKNNQLVE KNQVLGEAST FLTRQNQSIE SYQTIYSEFS GEVKFQHSKG VQVLKKELDF
     KIDDQELSSV LKNKLRKLKS LFNPSANSST GEFWILSAQK QTISKPVNLL VKPGDFLHQK
     ALLYLAKKAS YSNYFETIAL DPSHNLPTLP LPILFYDFGV NSLAKNLNKN AFFNLALLNE
     QLYLRKGNLF LMQDRSTQKK ANRSTIKILP SLQKQTLQNF KKVCSDLPFV SRSLFPISES
     SRDKLNSIQN GVKLQSTIVG KHRFLSLNII FTQIAKKKFF KMNLNSEVKI KSLKQFDLNH
     ESNEMKQIGV FNKDKTPTGG FGIQEIFYTS FESKLKTSPL FLLAQFSSDK TLIDLTKQNV
     QDFKFKNLNY QYFHPFLVLA SDPPFCVSEK TLHFMQSCGQ SLNEIDPNPK IETFFSKSAP
     SFLDKNRRNK RFKSLKKTME KNHLLSLYYF LTQPLSDDND DTIMNSFNRK SKLNKFSTKR
     LNKKQIVFGK LNHHFFADKG GDDFHFKNFI HGGLSFKEVC EVDLYLKERV EVFNWKIATL
     GTPVSDIITK AEKFVLFHSP TNACGSFILE QPLKNPCFYA FGKIGFLRGK TDYGQPNKIF
     SSNLFNLKKG WKTKTEGRFT NRPNKQKFKS FINSVEKSGP LNKKIFQNEG PFALNDFTKI
     QPIVGNQLNE NFFTNAAELL KKRPGAAKQE FQLTSFLEKF INRHNRLFWF PKDQNILNFA
     DQQSKGPTNL LFQRKFLKDL TLFSDGDPSF SCRSFVFQTK FYLSKKLFEN LPRHNFENYD
     IISGPINFQE FEILQKIPFS FYPLSSRSTQ KFGPFFILPR EVTKKQSFQI FKYPLLFELK
     TYSPTFFSTV FFFIRNFGPK FHKKRERKLI KAIFRPLPRL IGFSTLKSPL DSGQTTTEKA
     GLQKPVYRFI KKSELFFSIF DYQILKNYRR LASNLILKQN GLNLLNYSPI LNSLLKSALL
     FNIASAKKNS VFEKLGLKIS AAYSESKTFG IATEKNSLNS NSVVLFQKKQ SGFLIRELNP
     FHNTLGSPFF DRSKKVDNPQ SSLTFDRPQS ANERKQILKK ARQKLRLFPL NLNEKKNRFS
     SVTLDLLRDQ TTLHKMQSCG EAESGNLKTK ETLFKKVKRE NKKITEIFTF CPFCPQLKSK
     GKRKSKGDQL FQEPCNLNLG ENFLSCLPFG FEYPVKARRR LVKEQRLPFS LSLILPDKLN
     YYQSLTSFPF SKQMGNRLLK NLTQLNFLNV GCIRLSQLDS KILRSDSFNP QRKELKSKKF
     NNFSINELSD SFMNLGWTGF SQKNLILKYL DTDQIFKKGG PLKSNLQDSQ LVECFFKTKK
     VHFLFISKLL KESSLNSFFY NFYYSGSSFN SFADIQKFEN KASFFQTKKK LYNFEKKDQW
     QKKMSFLFFI QNKKTHLFLP NSKGFFLKKK KDISCERFST NVILSKSQSK NETKELKKAS
     LANQNLKKHS TISTENALKN KMNQSFSFSH FNKEKKPLSD CRAQTKGAIQ KFSTKLPPTQ
     TGWIFAILNP KIYLNKHNCV EFAGNSNLSD ISFDNYVTLT CFLTIRFVNT FFELHANVDF
     WLKTLNTFHL GLLKQSSFDF KASKIKLQKT PFLFPSFPPN YIELVFVKKA ILRRVAKKDS
     TFCNLYSFEN FLLDKRFQKF KTHFNLQSHL KLAPSFCVDL QGSKGLENFA WTGKLRSQSQ
     ASWILETNLF SPCFADKQSK SPLLEFENKK CPAFAKGKLQ KSKIEKFEFT YNDIKNKLVY
     FNKSFFLTSD QRPVFQRSFP KKIHRKTLFI THPSIIWKSR FESSLKSLTF FKMKAKQNGT
     GSLSFFEKKS LETSLNKTSV LFKKVLAIKT FLLFSFSSLN LVSGKLNFLS SVDQNKKSNL
     KIQSIFENFA YQQSKGSNEI NFSRSAALHS MQSFVFSEKL RKTLSLRISN FHKIQKYANQ
     NLESGIGFFS FFQKSLSIVF FDSAYHFSPQ NTSTKDSFEI KKENKTVINN YCRFSNFKLL
     KLPVFKNRFL NKYSLFKSFL NYLSYSFDVK TSKQILVRLP LLKETCFHFN KNSRFKPKLL
     ILNQANSQQL LATCFVQPYS EFSNSSFVFN SKSAHLHSQT AVKHRQNFEK KSKIIFDERK
     TFSFISSSTQ VLFVSKKATH YLNENFRSQN YKKKTYDFID NANVLKNRFF ERLSPVEFHR
     KREGFLSKDQ KQMTFKYQNM QGGLIPALDS TSTFAPFARS SKARGSAKAI FSQAQRLWGE
     ESFINDKQKS IRNQIIFAKN SRFKNLLILN NKNENEKLFY LNLKKKVSEQ STMNFFVPAL
     YKKLFYTKQS ISKFLEVKIQ PNLQIQWTFF NSNISKHEKQ QKFLLPLFDE TFNIQGSNLK
     NGLNFGMLSL SYSTLDPFFE CLKKRVNSSW FFNGKQTFKK KKKIAKEGAF FNHSFFLDAK
     KSKQLNKKIQ KKFTKRLQTL NFSEIKKGFF ISEKFKTRLS CLIKKPFLIS TFFLSYRLKK
     PKLALNFNYQ SLGNNSKKFS LIRLNSIDFN LSKSQRGWFH NQNVSKQFRF FKHNRSVNLF
     QIHFDFENSC DPCFAMQKQT TSSKPVLFLY NLKPLKTDFF QKGFQTTSQL LFKHINHSIV
     PLKDDANHLS SFLNQANFRG AFEPKAKTIA DKLISQNVAI TKPNLPKSNF SSLKGEVFFV
     TNSRQFKLVD LSVFKKSSRE IQLLTNLDLI TFRIKNRNFP SKHIEEQKPN LIEKQLAQSK
     NKLQIYIGQL LRYGKEISPG IGLNQSGQIL ILQSNKLVLR YAKPFLLASG GICDLVQGDF
     VKNQSPLLNL KYKSLKTEDI VQGIPKIEQL FEARENFQDE LGINNLLKNK FLVYKTLYHP
     KEAVRKSFEF IQHYIIDGIQ YVYQSQGVNI SDKHIEIIVK QMTSKVRILE PRNSGLLRGD
     VVDLDWIERI NLDILTGKKA QYEPIVLGIT KASLDRRGFI SAASFQETIK VLTKATILQR
     RDYLRGLKEN VILGHLINSG TGSTLYSILK EKKSNFLNRF LQ