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Q8CFI7

- RPB2_MOUSE

UniProt

Q8CFI7 - RPB2_MOUSE

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Protein

DNA-directed RNA polymerase II subunit RPB2

Gene
Polr2b
Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at transcript 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.

Catalytic activityi

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi792 – 7921Magnesium; shared with RPB1 By similarity
Metal bindingi1119 – 11191Zinc By similarity
Metal bindingi1122 – 11221Zinc By similarity
Metal bindingi1137 – 11371Zinc By similarity
Metal bindingi1140 – 11401Zinc By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1119 – 114022C4-typeAdd
BLAST

GO - Molecular functioni

  1. chromatin binding Source: MGI
  2. DNA binding Source: InterPro
  3. DNA-directed RNA polymerase activity Source: UniProtKB-KW
  4. metal ion binding Source: UniProtKB-KW
  5. ribonucleoside binding Source: InterPro

GO - Biological processi

  1. transcription from RNA polymerase II promoter Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, Transferase

Keywords - Biological processi

Transcription

Keywords - Ligandi

Magnesium, Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiREACT_203462. Formation of the Early Elongation Complex.
REACT_213655. Transcription-coupled NER (TC-NER).
REACT_221178. MicroRNA (miRNA) biogenesis.
REACT_223654. Formation of transcription-coupled NER (TC-NER) repair complex.
REACT_224562. Dual incision reaction in TC-NER.
REACT_226490. RNA Polymerase II Transcription Elongation.

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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Chromosome 5

Organism-specific databases

MGIiMGI:2388280. Polr2b.

Subcellular locationi

Nucleus By similarity

GO - Cellular componenti

  1. DNA-directed RNA polymerase II, core complex Source: UniProtKB
  2. nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

DNA-directed RNA polymerase, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 11741174DNA-directed RNA polymerase II subunit RPB2PRO_0000048086Add
BLAST

Proteomic databases

MaxQBiQ8CFI7.
PaxDbiQ8CFI7.
PRIDEiQ8CFI7.

PTM databases

PhosphoSiteiQ8CFI7.

Expressioni

Gene expression databases

BgeeiQ8CFI7.
CleanExiMM_POLR2B.
GenevestigatoriQ8CFI7.

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.

Protein-protein interaction databases

BioGridi231111. 8 interactions.
DIPiDIP-57023N.
IntActiQ8CFI7. 8 interactions.
MINTiMINT-4133069.

Structurei

3D structure databases

ProteinModelPortaliQ8CFI7.

Family & Domainsi

Sequence similaritiesi

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1119 – 114022C4-typeAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiCOG0085.
GeneTreeiENSGT00750000117589.
HOGENOMiHOG000222962.
HOVERGENiHBG017744.
InParanoidiQ8CFI7.
KOiK03010.
OMAiDSQMLEM.
OrthoDBiEOG7JT6VC.
PhylomeDBiQ8CFI7.
TreeFamiTF103037.

Family and domain databases

Gene3Di2.40.270.10. 2 hits.
2.40.50.150. 1 hit.
3.90.1110.10. 1 hit.
InterProiIPR015712. DNA-dir_RNA_pol_su2.
IPR007120. DNA-dir_RNA_pol_su2_6.
IPR007121. RNA_pol_bsu_CS.
IPR007644. RNA_pol_bsu_protrusion.
IPR007642. RNA_pol_Rpb2_2.
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.
[Graphical view]
PANTHERiPTHR20856. PTHR20856. 1 hit.
PfamiPF04563. 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.
[Graphical view]
PROSITEiPS01166. RNA_POL_BETA. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q8CFI7-1 [UniParc]FASTAAdd to Basket

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MYDADEDMQY DEDDDEITPD LWQEACWIVI SSYFDEKGLV RQQLDSFDEF     50
IQMSVQRIVE DAPPIDLQAE AQHASGEVEE PPRYLLKFEQ IYLSKPTHWE 100
RDGAPSPMMP NEARLRNLTY SAPLYVDITK TVIKEGEEQL QTQHQKTFIG 150
KIPIMLRSTY CLLNGLTDRD LCELNECPLD PGGYFIINGS EKVLIAQEKM 200
ATNTVYVFAK KDSKYAYTGE CRSCLENSSR PTSTIWVSML ARGGQGAKKS 250
AIGQRIVATL PYIKQEVPII IVFRALGFVS DRDILEHIIY DFEDPEMMEM 300
VKPSLDEAFV IQEQNVALNF IGSRGAKPGV TKEKRIKYAK EVLQKEMLPH 350
VGVSDFCETK KAYFLGYMVH RLLLAALGRR ELDDRDHYGN KRLDLAGPLL 400
AFLFRGMFKN LLKEVRIYAQ KFIDRGKDFN LELAIKTRII SDGLKYSLAT 450
GNWGDQKKAH QARAGVSQVL NRLTFASTLS HLRRLNSPIG RDGKLAKPRQ 500
LHNTLWGMVC PAETPEGHAV GLVKNLALMA YISVGSQPSP ILEFLEEWSM 550
ENLEEISPAA IADATKIFVN GCWVGIHKDP EQLMNTLRKL RRQMDIIVSE 600
VSMIRDIRER EIRIYTDAGR ICRPLLIVEK QKLLLKKRHI DQLKEREYNN 650
YSWQDLVASG VVEYIDTLEE ETVMLAMTPD DLQEKEVAYC STYTHCEIHP 700
SMILGVCASI IPFPDHNQSP RNTYQSAMGK QAMGVYITNF HVRMDTLAHV 750
LYYPQKPLVT TRSMEYLRFR ELPAGINSIV AIASYTGYNQ EDSVIMNRSA 800
VDRGFFRSVF YRSYKEQESK KGFDQEEVFE KPTRETCQGM RHAIYEKLDD 850
DGLIAPGVRV SGDDVIIGKT VTLPENEDEL ESTNRRYTKR DCSTFLRTSE 900
TGIVDQVMVT LNQEGYKFCK IRVRSVRIPQ IGDKFASRHG QKGTCGIQYR 950
QEDMPFTCEG ITPDIIINPH AIPSRMTIGH LIECLQGKVS ANKGEIGDAT 1000
PFNDAVNVQK ISNLLSDYGY HLRGNEVLYN GFTGRKITSQ IFIGPTYYQR 1050
LKHMVDDKIH SRARGPIQIL NRQPMEGRSR DGGLRFGEME RDCQIAHGAA 1100
QFLRERLFEA SDPYQVHVCN LCGIMAIANT RTHTYECRGC RNKTQISLVR 1150
MPYACKLLFQ ELMSMSIAPR MMSV 1174
Length:1,174
Mass (Da):133,911
Last modified:August 31, 2004 - v2
Checksum:iF941FA6EC03E2160
GO

Sequence cautioni

The sequence AAH38472.1 differs from that shown. Reason: Erroneous initiation.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
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.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BC038472 mRNA. Translation: AAH38472.1 . Different initiation.
CCDSi CCDS51528.1.
RefSeqi NP_722493.2. NM_153798.2.
UniGenei Mm.273217.

3D structure databases

ProteinModelPortali Q8CFI7.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 231111. 8 interactions.
DIPi DIP-57023N.
IntActi Q8CFI7. 8 interactions.
MINTi MINT-4133069.

PTM databases

PhosphoSitei Q8CFI7.

Proteomic databases

MaxQBi Q8CFI7.
PaxDbi Q8CFI7.
PRIDEi Q8CFI7.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSMUST00000031167 ; ENSMUSP00000031167 ; ENSMUSG00000029250 .
GeneIDi 231329.
KEGGi mmu:231329.
UCSCi uc008xwe.2. mouse.

Organism-specific databases

CTDi 5431.
MGIi MGI:2388280. Polr2b.

Phylogenomic databases

eggNOGi COG0085.
GeneTreei ENSGT00750000117589.
HOGENOMi HOG000222962.
HOVERGENi HBG017744.
InParanoidi Q8CFI7.
KOi K03010.
OMAi DSQMLEM.
OrthoDBi EOG7JT6VC.
PhylomeDBi Q8CFI7.
TreeFami TF103037.

Enzyme and pathway databases

Reactomei REACT_203462. Formation of the Early Elongation Complex.
REACT_213655. Transcription-coupled NER (TC-NER).
REACT_221178. MicroRNA (miRNA) biogenesis.
REACT_223654. Formation of transcription-coupled NER (TC-NER) repair complex.
REACT_224562. Dual incision reaction in TC-NER.
REACT_226490. RNA Polymerase II Transcription Elongation.

Miscellaneous databases

ChiTaRSi POLR2B. mouse.
NextBioi 380519.
PROi Q8CFI7.
SOURCEi Search...

Gene expression databases

Bgeei Q8CFI7.
CleanExi MM_POLR2B.
Genevestigatori Q8CFI7.

Family and domain databases

Gene3Di 2.40.270.10. 2 hits.
2.40.50.150. 1 hit.
3.90.1110.10. 1 hit.
InterProi IPR015712. DNA-dir_RNA_pol_su2.
IPR007120. DNA-dir_RNA_pol_su2_6.
IPR007121. RNA_pol_bsu_CS.
IPR007644. RNA_pol_bsu_protrusion.
IPR007642. RNA_pol_Rpb2_2.
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.
[Graphical view ]
PANTHERi PTHR20856. PTHR20856. 1 hit.
Pfami 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.
[Graphical view ]
PROSITEi PS01166. RNA_POL_BETA. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: FVB/N.
    Tissue: Mammary tumor.

Entry informationi

Entry nameiRPB2_MOUSE
AccessioniPrimary (citable) accession number: Q8CFI7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 31, 2004
Last sequence update: August 31, 2004
Last modified: September 3, 2014
This is version 95 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

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.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi