RPB9_PIG
ID RPB9_PIG Reviewed; 125 AA.
AC P60899;
DT 13-APR-2004, integrated into UniProtKB/Swiss-Prot.
DT 13-APR-2004, sequence version 1.
DT 03-AUG-2022, entry version 122.
DE RecName: Full=DNA-directed RNA polymerase II subunit RPB9;
DE Short=RNA polymerase II subunit B9;
DE AltName: Full=DNA-directed RNA polymerase II subunit I;
DE AltName: Full=RNA polymerase II 14.5 kDa subunit;
DE Short=RPB14.5;
GN Name=POLR2I;
OS Sus scrofa (Pig).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus.
OX NCBI_TaxID=9823;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RX PubMed=11856879; DOI=10.1159/000048814;
RA Droegemueller C., Kuiper H., Voss-Nemitz R., Brenig B., Distl O., Leeb T.;
RT "Molecular characterization and chromosome assignment of the porcine gene
RT COX7A1 coding for the muscle specific cytochrome c oxidase subunit VIIa-
RT M.";
RL Cytogenet. Cell Genet. 94:190-193(2001).
CC -!- FUNCTION: DNA-dependent RNA polymerase catalyzes the transcription of
CC DNA into RNA using the four ribonucleoside triphosphates as substrates.
CC Component of RNA polymerase II which synthesizes mRNA precursors and
CC many functional non-coding RNAs. Pol II is the central component of the
CC basal RNA polymerase II transcription machinery. It is composed of
CC mobile elements that move relative to each other. RPB9 is part of the
CC upper jaw surrounding the central large cleft and thought to grab the
CC incoming DNA template (By similarity). {ECO:0000250}.
CC -!- SUBUNIT: Component of the RNA polymerase II (Pol II) complex consisting
CC of 12 subunits. {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Nucleus, nucleolus
CC {ECO:0000250|UniProtKB:P32529}.
CC -!- SIMILARITY: Belongs to the archaeal RpoM/eukaryotic RPA12/RPB9/RPC11
CC RNA polymerase family. {ECO:0000305}.
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DR EMBL; AJ410870; CAD56045.1; -; Genomic_DNA.
DR RefSeq; NP_001192333.1; NM_001205404.1.
DR PDB; 6EXV; EM; 3.60 A; I=1-125.
DR PDB; 6GMH; EM; 3.10 A; I=1-125.
DR PDB; 6GML; EM; 3.20 A; I=1-125.
DR PDB; 6TED; EM; 3.10 A; I=1-125.
DR PDB; 7B0Y; EM; 3.60 A; I=1-125.
DR PDB; 7B7U; EM; 2.80 A; I=1-125.
DR PDB; 7EDX; EM; 4.50 A; w=1-125.
DR PDB; 7EG7; EM; 6.20 A; w=1-125.
DR PDB; 7EG8; EM; 7.40 A; w=1-125.
DR PDB; 7EG9; EM; 3.70 A; w=1-125.
DR PDB; 7EGA; EM; 4.10 A; w=1-125.
DR PDB; 7EGB; EM; 3.30 A; w=1-125.
DR PDB; 7EGC; EM; 3.90 A; w=1-125.
DR PDB; 7ENA; EM; 4.07 A; PI=1-125.
DR PDB; 7ENC; EM; 4.13 A; PI=1-125.
DR PDB; 7F4G; EM; 2.78 A; I=1-125.
DR PDB; 7NVR; EM; 4.50 A; I=1-125.
DR PDB; 7NVS; EM; 2.80 A; I=1-125.
DR PDB; 7NVT; EM; 2.90 A; I=1-125.
DR PDB; 7NVU; EM; 2.50 A; I=1-125.
DR PDB; 7NVY; EM; 7.30 A; I=1-125.
DR PDB; 7NVZ; EM; 7.20 A; I=1-125.
DR PDB; 7NW0; EM; 6.60 A; I=1-125.
DR PDB; 7OKX; EM; 3.30 A; I=1-125.
DR PDB; 7OKY; EM; 4.14 A; I=1-125.
DR PDB; 7OL0; EM; 3.00 A; I=1-125.
DR PDB; 7OO3; EM; 2.80 A; I=1-125.
DR PDB; 7OOB; EM; 2.70 A; I=1-125.
DR PDB; 7OOP; EM; 2.90 A; I=1-125.
DR PDB; 7OPC; EM; 3.00 A; I=1-125.
DR PDB; 7OPD; EM; 3.00 A; I=1-125.
DR PDB; 7OZN; EM; 3.50 A; I/U=1-125.
DR PDB; 7OZO; EM; 3.80 A; I/U=1-125.
DR PDB; 7OZP; EM; 3.80 A; I/U=1-125.
DR PDB; 7PKS; EM; 3.60 A; I=1-125.
DR PDBsum; 6EXV; -.
DR PDBsum; 6GMH; -.
DR PDBsum; 6GML; -.
DR PDBsum; 6TED; -.
DR PDBsum; 7B0Y; -.
DR PDBsum; 7B7U; -.
DR PDBsum; 7EDX; -.
DR PDBsum; 7EG7; -.
DR PDBsum; 7EG8; -.
DR PDBsum; 7EG9; -.
DR PDBsum; 7EGA; -.
DR PDBsum; 7EGB; -.
DR PDBsum; 7EGC; -.
DR PDBsum; 7ENA; -.
DR PDBsum; 7ENC; -.
DR PDBsum; 7F4G; -.
DR PDBsum; 7NVR; -.
DR PDBsum; 7NVS; -.
DR PDBsum; 7NVT; -.
DR PDBsum; 7NVU; -.
DR PDBsum; 7NVY; -.
DR PDBsum; 7NVZ; -.
DR PDBsum; 7NW0; -.
DR PDBsum; 7OKX; -.
DR PDBsum; 7OKY; -.
DR PDBsum; 7OL0; -.
DR PDBsum; 7OO3; -.
DR PDBsum; 7OOB; -.
DR PDBsum; 7OOP; -.
DR PDBsum; 7OPC; -.
DR PDBsum; 7OPD; -.
DR PDBsum; 7OZN; -.
DR PDBsum; 7OZO; -.
DR PDBsum; 7OZP; -.
DR PDBsum; 7PKS; -.
DR AlphaFoldDB; P60899; -.
DR SMR; P60899; -.
DR STRING; 9823.ENSSSCP00000003150; -.
DR PaxDb; P60899; -.
DR PeptideAtlas; P60899; -.
DR PRIDE; P60899; -.
DR Ensembl; ENSSSCT00000044156; ENSSSCP00000042610; ENSSSCG00000039196.
DR Ensembl; ENSSSCT00005047813; ENSSSCP00005029428; ENSSSCG00005030015.
DR Ensembl; ENSSSCT00015041231; ENSSSCP00015016293; ENSSSCG00015031055.
DR Ensembl; ENSSSCT00025083952; ENSSSCP00025036523; ENSSSCG00025061303.
DR Ensembl; ENSSSCT00030034726; ENSSSCP00030015850; ENSSSCG00030024862.
DR Ensembl; ENSSSCT00035043945; ENSSSCP00035017595; ENSSSCG00035033168.
DR Ensembl; ENSSSCT00040102913; ENSSSCP00040046544; ENSSSCG00040074424.
DR Ensembl; ENSSSCT00045040762; ENSSSCP00045028342; ENSSSCG00045023824.
DR Ensembl; ENSSSCT00050031615; ENSSSCP00050013209; ENSSSCG00050023426.
DR Ensembl; ENSSSCT00055046226; ENSSSCP00055036861; ENSSSCG00055023461.
DR Ensembl; ENSSSCT00060093581; ENSSSCP00060040479; ENSSSCG00060068558.
DR Ensembl; ENSSSCT00065095075; ENSSSCP00065041582; ENSSSCG00065069254.
DR Ensembl; ENSSSCT00070016472; ENSSSCP00070013643; ENSSSCG00070008520.
DR GeneID; 414403; -.
DR KEGG; ssc:414403; -.
DR CTD; 5438; -.
DR VGNC; VGNC:91653; POLR2I.
DR eggNOG; KOG2691; Eukaryota.
DR GeneTree; ENSGT00550000075063; -.
DR HOGENOM; CLU_093932_0_1_1; -.
DR InParanoid; P60899; -.
DR OMA; CRDCNNM; -.
DR OrthoDB; 1421187at2759; -.
DR TreeFam; TF103032; -.
DR Reactome; R-SSC-112382; Formation of RNA Pol II elongation complex.
DR Reactome; R-SSC-113418; Formation of the Early Elongation Complex.
DR Reactome; R-SSC-5578749; Transcriptional regulation by small RNAs.
DR Reactome; R-SSC-674695; RNA Polymerase II Pre-transcription Events.
DR Reactome; R-SSC-6781823; Formation of TC-NER Pre-Incision Complex.
DR Reactome; R-SSC-6782135; Dual incision in TC-NER.
DR Reactome; R-SSC-6782210; Gap-filling DNA repair synthesis and ligation in TC-NER.
DR Reactome; R-SSC-6796648; TP53 Regulates Transcription of DNA Repair Genes.
DR Reactome; R-SSC-6803529; FGFR2 alternative splicing.
DR Reactome; R-SSC-6807505; RNA polymerase II transcribes snRNA genes.
DR Reactome; R-SSC-72086; mRNA Capping.
DR Reactome; R-SSC-72163; mRNA Splicing - Major Pathway.
DR Reactome; R-SSC-72165; mRNA Splicing - Minor Pathway.
DR Reactome; R-SSC-72203; Processing of Capped Intron-Containing Pre-mRNA.
DR Reactome; R-SSC-73776; RNA Polymerase II Promoter Escape.
DR Reactome; R-SSC-73779; RNA Polymerase II Transcription Pre-Initiation And Promoter Opening.
DR Reactome; R-SSC-75953; RNA Polymerase II Transcription Initiation.
DR Reactome; R-SSC-75955; RNA Polymerase II Transcription Elongation.
DR Reactome; R-SSC-76042; RNA Polymerase II Transcription Initiation And Promoter Clearance.
DR Reactome; R-SSC-77075; RNA Pol II CTD phosphorylation and interaction with CE.
DR Reactome; R-SSC-9018519; Estrogen-dependent gene expression.
DR Proteomes; UP000008227; Chromosome 6.
DR Proteomes; UP000314985; Chromosome 6.
DR Bgee; ENSSSCG00000039196; Expressed in longissimus lumborum muscle and 43 other tissues.
DR ExpressionAtlas; P60899; baseline and differential.
DR Genevisible; P60899; SS.
DR GO; GO:0005730; C:nucleolus; IEA:UniProtKB-SubCell.
DR GO; GO:0005634; C:nucleus; ISS:UniProtKB.
DR GO; GO:0005665; C:RNA polymerase II, core complex; ISS:UniProtKB.
DR GO; GO:0003676; F:nucleic acid binding; IEA:InterPro.
DR GO; GO:0008270; F:zinc ion binding; IEA:InterPro.
DR GO; GO:0001193; P:maintenance of transcriptional fidelity during DNA-templated transcription elongation from RNA polymerase II promoter; IBA:GO_Central.
DR GO; GO:0006379; P:mRNA cleavage; IEA:InterPro.
DR GO; GO:0006366; P:transcription by RNA polymerase II; ISS:UniProtKB.
DR GO; GO:0006367; P:transcription initiation from RNA polymerase II promoter; IBA:GO_Central.
DR GO; GO:0006283; P:transcription-coupled nucleotide-excision repair; IBA:GO_Central.
DR CDD; cd10508; Zn-ribbon_RPB9; 1.
DR InterPro; IPR019761; DNA-dir_RNA_pol-M_15_CS.
DR InterPro; IPR001529; DNA-dir_RNA_pol_M/15kDasu.
DR InterPro; IPR012164; Rpa12/Rpb9/Rpc10/TFS.
DR InterPro; IPR034012; Zn_ribbon_RPB9_C.
DR InterPro; IPR001222; Znf_TFIIS.
DR PANTHER; PTHR11239; PTHR11239; 1.
DR Pfam; PF02150; RNA_POL_M_15KD; 1.
DR Pfam; PF01096; TFIIS_C; 1.
DR PIRSF; PIRSF005586; RNApol_RpoM; 1.
DR SMART; SM00661; RPOL9; 1.
DR SMART; SM00440; ZnF_C2C2; 1.
DR PROSITE; PS01030; RNA_POL_M_15KD; 1.
DR PROSITE; PS00466; ZF_TFIIS_1; 1.
DR PROSITE; PS51133; ZF_TFIIS_2; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Acetylation; DNA-directed RNA polymerase; Metal-binding;
KW Nucleus; Reference proteome; Transcription; Zinc; Zinc-finger.
FT CHAIN 1..125
FT /note="DNA-directed RNA polymerase II subunit RPB9"
FT /id="PRO_0000121469"
FT ZN_FING 17..42
FT /note="C4-type"
FT /evidence="ECO:0000255"
FT ZN_FING 82..124
FT /note="TFIIS-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00472"
FT BINDING 17
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="1"
FT /evidence="ECO:0000250|UniProtKB:P27999"
FT BINDING 20
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="1"
FT /evidence="ECO:0000250|UniProtKB:P27999"
FT BINDING 39
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="1"
FT /evidence="ECO:0000250|UniProtKB:P27999"
FT BINDING 42
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="1"
FT /evidence="ECO:0000250|UniProtKB:P27999"
FT BINDING 86
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00472"
FT BINDING 89
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00472"
FT BINDING 114
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00472"
FT BINDING 119
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00472"
FT MOD_RES 1
FT /note="N-acetylmethionine"
FT /evidence="ECO:0000250|UniProtKB:P36954"
FT TURN 18..20
FT /evidence="ECO:0007829|PDB:7NVU"
FT STRAND 23..29
FT /evidence="ECO:0007829|PDB:7NVU"
FT TURN 30..33
FT /evidence="ECO:0007829|PDB:7NVU"
FT STRAND 34..39
FT /evidence="ECO:0007829|PDB:7NVU"
FT TURN 40..42
FT /evidence="ECO:0007829|PDB:7NVU"
FT STRAND 45..47
FT /evidence="ECO:0007829|PDB:7NVU"
FT STRAND 52..56
FT /evidence="ECO:0007829|PDB:7NVU"
FT HELIX 64..67
FT /evidence="ECO:0007829|PDB:7NVU"
FT HELIX 70..74
FT /evidence="ECO:0007829|PDB:7NVU"
FT STRAND 76..78
FT /evidence="ECO:0007829|PDB:7OZN"
FT STRAND 80..84
FT /evidence="ECO:0007829|PDB:7NVU"
FT TURN 87..89
FT /evidence="ECO:0007829|PDB:7NVU"
FT STRAND 94..98
FT /evidence="ECO:0007829|PDB:7NVU"
FT TURN 102..104
FT /evidence="ECO:0007829|PDB:7F4G"
FT STRAND 110..114
FT /evidence="ECO:0007829|PDB:7NVU"
FT TURN 117..119
FT /evidence="ECO:0007829|PDB:7OOB"
FT STRAND 122..124
FT /evidence="ECO:0007829|PDB:7NVU"
SQ SEQUENCE 125 AA; 14523 MW; 6520687BB57EE018 CRC64;
MEPDGTYEPG FVGIRFCQEC NNMLYPKEDK ENRILLYACR NCDYQQEADN SCIYVNKITH
EVDELTQIIA DVSQDPTLPR TEDHPCQKCG HKEAVFFQSH SARAEDAMRL YYVCTAPHCG
HRWTE
