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Protein

DNA-directed RNA polymerase II subunit RPB2

Gene

Polr2b

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Second largest component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Proposed to contribute to the polymerase catalytic activity and forms the polymerase active center together with the largest subunit. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB2 is part of the core element with the central large cleft, the clamp element that moves to open and close the cleft and the jaws that are thought to grab the incoming DNA template (By similarity).By similarity

Miscellaneous

The binding of ribonucleoside triphosphate to the RNA polymerase II transcribing complex probably involves a two-step mechanism. The initial binding seems to occur at the entry (E) site and involves a magnesium ion coordinated by three conserved aspartate residues of the two largest RNA Pol II subunits (By similarity).By similarity

Catalytic activityi

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi792Magnesium; shared with RPB1By similarity1
Metal bindingi1119ZincBy similarity1
Metal bindingi1122ZincBy similarity1
Metal bindingi1137ZincBy similarity1
Metal bindingi1140ZincBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri1119 – 1140C4-typeAdd BLAST22

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionNucleotidyltransferase, Transferase
Biological processTranscription
LigandMagnesium, Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-MMU-112382 Formation of RNA Pol II elongation complex
R-MMU-113418 Formation of the Early Elongation Complex
R-MMU-5578749 Transcriptional regulation by small RNAs
R-MMU-674695 RNA Polymerase II Pre-transcription Events
R-MMU-6781823 Formation of TC-NER Pre-Incision Complex
R-MMU-6782135 Dual incision in TC-NER
R-MMU-6782210 Gap-filling DNA repair synthesis and ligation in TC-NER
R-MMU-6796648 TP53 Regulates Transcription of DNA Repair Genes
R-MMU-6803529 FGFR2 alternative splicing
R-MMU-6807505 RNA polymerase II transcribes snRNA genes
R-MMU-72086 mRNA Capping
R-MMU-72163 mRNA Splicing - Major Pathway
R-MMU-72165 mRNA Splicing - Minor Pathway
R-MMU-72203 Processing of Capped Intron-Containing Pre-mRNA
R-MMU-73776 RNA Polymerase II Promoter Escape
R-MMU-73779 RNA Polymerase II Transcription Pre-Initiation And Promoter Opening
R-MMU-75953 RNA Polymerase II Transcription Initiation
R-MMU-75955 RNA Polymerase II Transcription Elongation
R-MMU-76042 RNA Polymerase II Transcription Initiation And Promoter Clearance
R-MMU-77075 RNA Pol II CTD phosphorylation and interaction with CE
R-MMU-9018519 Estrogen-dependent gene expression

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-directed RNA polymerase II subunit RPB2 (EC:2.7.7.6)
Alternative name(s):
DNA-directed RNA polymerase II 140 kDa polypeptide
DNA-directed RNA polymerase II subunit B
RNA polymerase II subunit 2
RNA polymerase II subunit B2
Gene namesi
Name:Polr2b
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 5

Organism-specific databases

MGIiMGI:2388280 Polr2b

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

DNA-directed RNA polymerase, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000480861 – 1174DNA-directed RNA polymerase II subunit RPB2Add BLAST1174

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei937PhosphoserineBy similarity1
Modified residuei1052N6-methyllysineBy similarity1

Keywords - PTMi

Methylation, Phosphoprotein

Proteomic databases

EPDiQ8CFI7
MaxQBiQ8CFI7
PaxDbiQ8CFI7
PeptideAtlasiQ8CFI7
PRIDEiQ8CFI7

PTM databases

iPTMnetiQ8CFI7
PhosphoSitePlusiQ8CFI7

Expressioni

Gene expression databases

BgeeiENSMUSG00000029250 Expressed in 303 organ(s), highest expression level in saccule of membranous labyrinth
CleanExiMM_POLR2B
GenevisibleiQ8CFI7 MM

Interactioni

Subunit structurei

Component of the RNA polymerase II (Pol II) complex consisting of 12 subunits. Interacts with WDR82 (By similarity). Interacts with MEN1 (By similarity).By similarity

Protein-protein interaction databases

BioGridi231111, 10 interactors
DIPiDIP-57023N
IntActiQ8CFI7, 9 interactors
MINTiQ8CFI7
STRINGi10090.ENSMUSP00000031167

Structurei

3D structure databases

ProteinModelPortaliQ8CFI7
SMRiQ8CFI7
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the RNA polymerase beta chain family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri1119 – 1140C4-typeAdd BLAST22

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG0214 Eukaryota
COG0085 LUCA
GeneTreeiENSGT00920000149102
HOGENOMiHOG000222962
HOVERGENiHBG017744
InParanoidiQ8CFI7
KOiK03010
OMAiRTQPHFE
OrthoDBiEOG091G00RQ
PhylomeDBiQ8CFI7
TreeFamiTF103037

Family and domain databases

CDDicd00653 RNA_pol_B_RPB2, 1 hit
Gene3Di2.40.270.10, 1 hit
2.40.50.150, 1 hit
3.90.1110.10, 1 hit
InterProiView protein in InterPro
IPR015712 DNA-dir_RNA_pol_su2
IPR007120 DNA-dir_RNAP_su2_dom
IPR037033 DNA-dir_RNAP_su2_hyb_sf
IPR007121 RNA_pol_bsu_CS
IPR007644 RNA_pol_bsu_protrusion
IPR007642 RNA_pol_Rpb2_2
IPR037034 RNA_pol_Rpb2_2_sf
IPR007645 RNA_pol_Rpb2_3
IPR007646 RNA_pol_Rpb2_4
IPR007647 RNA_pol_Rpb2_5
IPR007641 RNA_pol_Rpb2_7
IPR014724 RNA_pol_RPB2_OB-fold
PANTHERiPTHR20856 PTHR20856, 1 hit
PfamiView protein in Pfam
PF04563 RNA_pol_Rpb2_1, 1 hit
PF04561 RNA_pol_Rpb2_2, 1 hit
PF04565 RNA_pol_Rpb2_3, 1 hit
PF04566 RNA_pol_Rpb2_4, 1 hit
PF04567 RNA_pol_Rpb2_5, 1 hit
PF00562 RNA_pol_Rpb2_6, 1 hit
PF04560 RNA_pol_Rpb2_7, 1 hit
PROSITEiView protein in PROSITE
PS01166 RNA_POL_BETA, 1 hit

Sequencei

Sequence statusi: Complete.

Q8CFI7-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MYDADEDMQY DEDDDEITPD LWQEACWIVI SSYFDEKGLV RQQLDSFDEF
60 70 80 90 100
IQMSVQRIVE DAPPIDLQAE AQHASGEVEE PPRYLLKFEQ IYLSKPTHWE
110 120 130 140 150
RDGAPSPMMP NEARLRNLTY SAPLYVDITK TVIKEGEEQL QTQHQKTFIG
160 170 180 190 200
KIPIMLRSTY CLLNGLTDRD LCELNECPLD PGGYFIINGS EKVLIAQEKM
210 220 230 240 250
ATNTVYVFAK KDSKYAYTGE CRSCLENSSR PTSTIWVSML ARGGQGAKKS
260 270 280 290 300
AIGQRIVATL PYIKQEVPII IVFRALGFVS DRDILEHIIY DFEDPEMMEM
310 320 330 340 350
VKPSLDEAFV IQEQNVALNF IGSRGAKPGV TKEKRIKYAK EVLQKEMLPH
360 370 380 390 400
VGVSDFCETK KAYFLGYMVH RLLLAALGRR ELDDRDHYGN KRLDLAGPLL
410 420 430 440 450
AFLFRGMFKN LLKEVRIYAQ KFIDRGKDFN LELAIKTRII SDGLKYSLAT
460 470 480 490 500
GNWGDQKKAH QARAGVSQVL NRLTFASTLS HLRRLNSPIG RDGKLAKPRQ
510 520 530 540 550
LHNTLWGMVC PAETPEGHAV GLVKNLALMA YISVGSQPSP ILEFLEEWSM
560 570 580 590 600
ENLEEISPAA IADATKIFVN GCWVGIHKDP EQLMNTLRKL RRQMDIIVSE
610 620 630 640 650
VSMIRDIRER EIRIYTDAGR ICRPLLIVEK QKLLLKKRHI DQLKEREYNN
660 670 680 690 700
YSWQDLVASG VVEYIDTLEE ETVMLAMTPD DLQEKEVAYC STYTHCEIHP
710 720 730 740 750
SMILGVCASI IPFPDHNQSP RNTYQSAMGK QAMGVYITNF HVRMDTLAHV
760 770 780 790 800
LYYPQKPLVT TRSMEYLRFR ELPAGINSIV AIASYTGYNQ EDSVIMNRSA
810 820 830 840 850
VDRGFFRSVF YRSYKEQESK KGFDQEEVFE KPTRETCQGM RHAIYEKLDD
860 870 880 890 900
DGLIAPGVRV SGDDVIIGKT VTLPENEDEL ESTNRRYTKR DCSTFLRTSE
910 920 930 940 950
TGIVDQVMVT LNQEGYKFCK IRVRSVRIPQ IGDKFASRHG QKGTCGIQYR
960 970 980 990 1000
QEDMPFTCEG ITPDIIINPH AIPSRMTIGH LIECLQGKVS ANKGEIGDAT
1010 1020 1030 1040 1050
PFNDAVNVQK ISNLLSDYGY HLRGNEVLYN GFTGRKITSQ IFIGPTYYQR
1060 1070 1080 1090 1100
LKHMVDDKIH SRARGPIQIL NRQPMEGRSR DGGLRFGEME RDCQIAHGAA
1110 1120 1130 1140 1150
QFLRERLFEA SDPYQVHVCN LCGIMAIANT RTHTYECRGC RNKTQISLVR
1160 1170
MPYACKLLFQ ELMSMSIAPR MMSV
Length:1,174
Mass (Da):133,911
Last modified:August 31, 2004 - v2
Checksum:iF941FA6EC03E2160
GO

Sequence cautioni

The sequence AAH38472 differs from that shown. Reason: Erroneous initiation.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC038472 mRNA Translation: AAH38472.1 Different initiation.
CCDSiCCDS51528.1
RefSeqiNP_722493.2, NM_153798.2
UniGeneiMm.273217

Genome annotation databases

EnsembliENSMUST00000031167; ENSMUSP00000031167; ENSMUSG00000029250
GeneIDi231329
KEGGimmu:231329
UCSCiuc008xwe.2 mouse

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC038472 mRNA Translation: AAH38472.1 Different initiation.
CCDSiCCDS51528.1
RefSeqiNP_722493.2, NM_153798.2
UniGeneiMm.273217

3D structure databases

ProteinModelPortaliQ8CFI7
SMRiQ8CFI7
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi231111, 10 interactors
DIPiDIP-57023N
IntActiQ8CFI7, 9 interactors
MINTiQ8CFI7
STRINGi10090.ENSMUSP00000031167

PTM databases

iPTMnetiQ8CFI7
PhosphoSitePlusiQ8CFI7

Proteomic databases

EPDiQ8CFI7
MaxQBiQ8CFI7
PaxDbiQ8CFI7
PeptideAtlasiQ8CFI7
PRIDEiQ8CFI7

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000031167; ENSMUSP00000031167; ENSMUSG00000029250
GeneIDi231329
KEGGimmu:231329
UCSCiuc008xwe.2 mouse

Organism-specific databases

CTDi5431
MGIiMGI:2388280 Polr2b

Phylogenomic databases

eggNOGiKOG0214 Eukaryota
COG0085 LUCA
GeneTreeiENSGT00920000149102
HOGENOMiHOG000222962
HOVERGENiHBG017744
InParanoidiQ8CFI7
KOiK03010
OMAiRTQPHFE
OrthoDBiEOG091G00RQ
PhylomeDBiQ8CFI7
TreeFamiTF103037

Enzyme and pathway databases

ReactomeiR-MMU-112382 Formation of RNA Pol II elongation complex
R-MMU-113418 Formation of the Early Elongation Complex
R-MMU-5578749 Transcriptional regulation by small RNAs
R-MMU-674695 RNA Polymerase II Pre-transcription Events
R-MMU-6781823 Formation of TC-NER Pre-Incision Complex
R-MMU-6782135 Dual incision in TC-NER
R-MMU-6782210 Gap-filling DNA repair synthesis and ligation in TC-NER
R-MMU-6796648 TP53 Regulates Transcription of DNA Repair Genes
R-MMU-6803529 FGFR2 alternative splicing
R-MMU-6807505 RNA polymerase II transcribes snRNA genes
R-MMU-72086 mRNA Capping
R-MMU-72163 mRNA Splicing - Major Pathway
R-MMU-72165 mRNA Splicing - Minor Pathway
R-MMU-72203 Processing of Capped Intron-Containing Pre-mRNA
R-MMU-73776 RNA Polymerase II Promoter Escape
R-MMU-73779 RNA Polymerase II Transcription Pre-Initiation And Promoter Opening
R-MMU-75953 RNA Polymerase II Transcription Initiation
R-MMU-75955 RNA Polymerase II Transcription Elongation
R-MMU-76042 RNA Polymerase II Transcription Initiation And Promoter Clearance
R-MMU-77075 RNA Pol II CTD phosphorylation and interaction with CE
R-MMU-9018519 Estrogen-dependent gene expression

Miscellaneous databases

ChiTaRSiPolr2b mouse
PROiPR:Q8CFI7
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000029250 Expressed in 303 organ(s), highest expression level in saccule of membranous labyrinth
CleanExiMM_POLR2B
GenevisibleiQ8CFI7 MM

Family and domain databases

CDDicd00653 RNA_pol_B_RPB2, 1 hit
Gene3Di2.40.270.10, 1 hit
2.40.50.150, 1 hit
3.90.1110.10, 1 hit
InterProiView protein in InterPro
IPR015712 DNA-dir_RNA_pol_su2
IPR007120 DNA-dir_RNAP_su2_dom
IPR037033 DNA-dir_RNAP_su2_hyb_sf
IPR007121 RNA_pol_bsu_CS
IPR007644 RNA_pol_bsu_protrusion
IPR007642 RNA_pol_Rpb2_2
IPR037034 RNA_pol_Rpb2_2_sf
IPR007645 RNA_pol_Rpb2_3
IPR007646 RNA_pol_Rpb2_4
IPR007647 RNA_pol_Rpb2_5
IPR007641 RNA_pol_Rpb2_7
IPR014724 RNA_pol_RPB2_OB-fold
PANTHERiPTHR20856 PTHR20856, 1 hit
PfamiView protein in Pfam
PF04563 RNA_pol_Rpb2_1, 1 hit
PF04561 RNA_pol_Rpb2_2, 1 hit
PF04565 RNA_pol_Rpb2_3, 1 hit
PF04566 RNA_pol_Rpb2_4, 1 hit
PF04567 RNA_pol_Rpb2_5, 1 hit
PF00562 RNA_pol_Rpb2_6, 1 hit
PF04560 RNA_pol_Rpb2_7, 1 hit
PROSITEiView protein in PROSITE
PS01166 RNA_POL_BETA, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiRPB2_MOUSE
AccessioniPrimary (citable) accession number: Q8CFI7
Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 31, 2004
Last sequence update: August 31, 2004
Last modified: November 7, 2018
This is version 133 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
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Main funding by: National Institutes of Health

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