ID H9LIB3_GOSHI Unreviewed; 1393 AA.
AC H9LIB3;
DT 13-JUN-2012, integrated into UniProtKB/TrEMBL.
DT 13-JUN-2012, sequence version 1.
DT 27-MAR-2024, entry version 49.
DE RecName: Full=DNA-directed RNA polymerase subunit beta'' {ECO:0000256|HAMAP-Rule:MF_01324};
DE EC=2.7.7.6 {ECO:0000256|HAMAP-Rule:MF_01324};
DE AltName: Full=PEP {ECO:0000256|HAMAP-Rule:MF_01324};
DE AltName: Full=Plastid-encoded RNA polymerase subunit beta'' {ECO:0000256|HAMAP-Rule:MF_01324};
DE Short=RNA polymerase subunit beta'' {ECO:0000256|HAMAP-Rule:MF_01324};
GN Name=rpoC2 {ECO:0000256|HAMAP-Rule:MF_01324,
GN ECO:0000313|EMBL:AEB90586.1, ECO:0000313|RefSeq:YP_538925.1};
GN ORFNames=GohiCp011 {ECO:0000313|RefSeq:YP_538925.1}, GopuCp011
GN {ECO:0000313|EMBL:AEB90586.1};
OS Gossypium hirsutum (Upland cotton) (Gossypium mexicanum).
OG Plastid; Chloroplast {ECO:0000313|EMBL:AEB90586.1,
OG ECO:0000313|RefSeq:YP_538925.1}.
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium.
OX NCBI_TaxID=3635 {ECO:0000313|EMBL:AEB90586.1};
RN [1] {ECO:0000313|RefSeq:YP_538925.1}
RP NUCLEOTIDE SEQUENCE.
RX PubMed=16553962; DOI=10.1186/1471-2164-7-61;
RA Lee S.B., Kaittanis C., Jansen R.K., Hostetler J.B., Tallon L.J.,
RA Town C.D., Daniell H.;
RT "The complete chloroplast genome sequence of Gossypium hirsutum:
RT organization and phylogenetic relationships to other angiosperms.";
RL BMC Genomics 7:61-61(2006).
RN [2] {ECO:0000313|RefSeq:YP_538925.1}
RP NUCLEOTIDE SEQUENCE.
RG NCBI Genome Project;
RL Submitted (APR-2006) to the EMBL/GenBank/DDBJ databases.
RN [3] {ECO:0000313|EMBL:AEB90586.1}
RP NUCLEOTIDE SEQUENCE.
RX PubMed=22876273; DOI=10.1371/journal.pone.0037128;
RA Xu Q., Xiong G., Li P., He F., Huang Y., Wang K., Li Z., Hua J.;
RT "Analysis of complete nucleotide sequences of 12 gossypium chloroplast
RT genomes: origin and evolution of allotetraploids.";
RL PLoS ONE 7:E37128-E37128(2012).
RN [4] {ECO:0000313|Proteomes:UP000189702}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. TM-1 {ECO:0000313|Proteomes:UP000189702};
RX PubMed=25893780; DOI=10.1038/nbt.3208;
RA Li F., Fan G., Lu C., Xiao G., Zou C., Kohel R.J., Ma Z., Shang H., Ma X.,
RA Wu J., Liang X., Huang G., Percy R.G., Liu K., Yang W., Chen W., Du X.,
RA Shi C., Yuan Y., Ye W., Liu X., Zhang X., Liu W., Wei H., Wei S., Huang G.,
RA Zhang X., Zhu S., Zhang H., Sun F., Wang X., Liang J., Wang J., He Q.,
RA Huang L., Wang J., Cui J., Song G., Wang K., Xu X., Yu J.Z., Zhu Y., Yu S.;
RT "Genome sequence of cultivated Upland cotton (Gossypium hirsutum TM-1)
RT provides insights into genome evolution.";
RL Nat. Biotechnol. 33:524-530(2015).
RN [5] {ECO:0000313|RefSeq:YP_538925.1}
RP IDENTIFICATION.
RG RefSeq;
RL Submitted (MAR-2017) to UniProtKB.
CC -!- FUNCTION: DNA-dependent RNA polymerase catalyzes the transcription of
CC DNA into RNA using the four ribonucleoside triphosphates as substrates.
CC {ECO:0000256|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:0000256|HAMAP-Rule:MF_01324};
CC -!- COFACTOR:
CC Name=Zn(2+); Xref=ChEBI:CHEBI:29105;
CC Evidence={ECO:0000256|HAMAP-Rule:MF_01324};
CC Note=Binds 1 Zn(2+) ion per subunit. {ECO:0000256|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:0000256|HAMAP-Rule:MF_01324}.
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast {ECO:0000256|HAMAP-
CC Rule:MF_01324}.
CC -!- SIMILARITY: Belongs to the RNA polymerase beta' chain family. RpoC2
CC subfamily. {ECO:0000256|HAMAP-Rule:MF_01324}.
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DR EMBL; HQ901197; AEB90586.1; -; Genomic_DNA.
DR RefSeq; YP_538925.1; NC_007944.1.
DR SMR; H9LIB3; -.
DR STRING; 3635.H9LIB3; -.
DR PaxDb; 3635-H9LIB3; -.
DR GeneID; 3989195; -.
DR KEGG; ghi:3989195; -.
DR OrthoDB; 806648at2759; -.
DR Proteomes; UP000189702; Chloroplast Pltd.
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:DNA-templated transcription; IEA:UniProtKB-UniRule.
DR CDD; cd02655; RNAP_beta'_C; 1.
DR Gene3D; 1.10.132.30; -; 1.
DR Gene3D; 1.10.150.390; -; 1.
DR Gene3D; 1.10.1790.20; -; 1.
DR Gene3D; 1.10.274.100; RNA polymerase Rpb1, domain 3; 1.
DR HAMAP; MF_01324; RNApol_bact_RpoC2; 1.
DR InterPro; IPR012756; DNA-dir_RpoC2_beta_pp.
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 NCBIfam; TIGR02388; rpoC2_cyan; 1.
DR PANTHER; PTHR48355; DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA; 1.
DR PANTHER; PTHR48355:SF1; DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA; 1.
DR Pfam; PF05000; RNA_pol_Rpb1_4; 1.
DR Pfam; PF04998; RNA_pol_Rpb1_5; 2.
DR SUPFAM; SSF64484; beta and beta-prime subunits of DNA dependent RNA-polymerase; 1.
PE 3: Inferred from homology;
KW Chloroplast {ECO:0000313|EMBL:AEB90586.1, ECO:0000313|RefSeq:YP_538925.1};
KW DNA-directed RNA polymerase {ECO:0000256|ARBA:ARBA00022478,
KW ECO:0000256|HAMAP-Rule:MF_01324};
KW Metal-binding {ECO:0000256|ARBA:ARBA00022723, ECO:0000256|HAMAP-
KW Rule:MF_01324};
KW Nucleotidyltransferase {ECO:0000256|ARBA:ARBA00022695, ECO:0000256|HAMAP-
KW Rule:MF_01324};
KW Plastid {ECO:0000313|EMBL:AEB90586.1, ECO:0000313|RefSeq:YP_538925.1};
KW Reference proteome {ECO:0000313|Proteomes:UP000189702};
KW Transcription {ECO:0000256|ARBA:ARBA00023163, ECO:0000256|HAMAP-
KW Rule:MF_01324};
KW Transferase {ECO:0000256|ARBA:ARBA00022679, ECO:0000256|HAMAP-
KW Rule:MF_01324};
KW Zinc {ECO:0000256|ARBA:ARBA00022833, ECO:0000256|HAMAP-Rule:MF_01324}.
FT DOMAIN 93..157
FT /note="RNA polymerase Rpb1"
FT /evidence="ECO:0000259|Pfam:PF05000"
FT DOMAIN 172..365
FT /note="RNA polymerase Rpb1"
FT /evidence="ECO:0000259|Pfam:PF04998"
FT DOMAIN 1196..1281
FT /note="RNA polymerase Rpb1"
FT /evidence="ECO:0000259|Pfam:PF04998"
FT BINDING 220
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_01324"
FT BINDING 291
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_01324"
FT BINDING 298
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_01324"
FT BINDING 301
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /evidence="ECO:0000256|HAMAP-Rule:MF_01324"
SQ SEQUENCE 1393 AA; 158638 MW; 5AFD403BADE21F47 CRC64;
MAERANLVFH NKVIDGTAIK RLISRLIDHF GMAYTSHILD QVKALGFQQA TATSISLGID
DLLTIPSKGW LVQDAEQQSL ILEKHHHFGN VHAVEKLRQS IEIWYATSEY LRQEMNPNFR
MTDPFNPVHI MSFSGARGNA SQVHQLVGMR GLMSDPQGQM IDLPIQSNLR EGLSLTEYII
SCYGARKGVV DTAVRTSDAG YLTRRLVEVV QHIVVRRTDC GTTRGISVSP QKRTLPERIF
IQTLIGRVLA DDIYMGPRCI AIRNQDIGLG LVDRFRAFRT QPISIRTPFT CRSTSWICRL
CYGRSPTHGD LVELGEAVGI IAGQSIGEPG TQLTLRTFHT GGVFTGGTAE HVRAPFNGKI
KFNEDLVHPT RTRHGHPAFL CYRDLYVIIE SEDIIHKVAI PPKSFLLVQN DQYVESEQVI
AEIRAGTYTL NLKERVRKHI YSDSEGEMHW STDVYHSPEF TYSNVHLLPK TSHLWILSGG
SYKFSVVPFS LHKDQDQISI HYLSAERRYI SRFSVNNDQV RHNLFSSDFS DKKEERIYDY
SELNRIIGTG HCDFIYSAIL HENADLLAKR RRNRFIIPFQ LIQDQEKELM LHSHSGISME
IPINGIFRRK SILAFFDDPR YRRKSSGITK YGTLGAHSIV KREDVIEYRG VKKVKPKYQM
KVDRFFFIPE EVHILSESSS IMVRNNSIIG VDTPITLNTR SQVGGLVRVE RKKKRIELKI
FSGNIYFPGE RDKISRHSGI LIPPGTGKTN SKESKKLKNW IYVQRITPTK KKYFVLVRPV
TPYEIPDGLN LATLFPQDPF QEKDNMQLRA VNYILYGNGK PTRRISDTSI QLVRTCLVLS
WDQDNKSSFA EEVCASFVEV RTNGLIRDFL RIDLVKSHIF YIRKRNDPSG SELISDNRSD
RTNKNPFYSI YSNARIQQSF SQNHGTIHTL LNRNKESQSL IILSASNCFR MGPFNDVKYH
NVIKQSIKKD PLIPIKNLLG PLGTAPKIAN FYSSFYPLIT HNQTSVAKYF ELDNLKQAFQ
VLNYYLIAEN GRIYNFDPCR NIFLNAVNLN WYFPHHHYHH NYCEETSTII SLGQFICENV
CIAKSGPRLK SGQVFIVQAD SIVIRSAKPY LATPGATVHG HYGETLYEGD TLVTFIYEKS
RSGDITQGLP KVEQVLEVRS IDSISMNLEK RIEGWNECIT RILGIPWGFV IGAELTIVQS
RLSLVNKIQK VYRSQGVQIH NRHIEIIVRQ ITSKVLVSED GMSNVFLPGE LIGLLRAERT
GRALEEAICY RAVLLGITRA SLNTQSFISE ASFQETARVL AKAALRGRID WLKGLKENVV
LGGMIPAGTG FKGLVHRSRQ HNNILLETKK KNFFGGEMRD IFFHHRELFD SCISNNLHDT
SGRSFIGIEF NDS
//
