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Protein

DNA-directed RNA polymerase II subunit RPB11-b1

Gene

POLR2J2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. 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. RPB11 is part of the core element with the central large cleft (By similarity).By similarity

GO - Molecular functioni

  1. DNA binding Source: InterPro
  2. DNA-directed RNA polymerase activity Source: UniProtKB-KW

GO - Biological processi

  1. transcription, DNA-templated Source: InterPro
Complete GO annotation...

Keywords - Biological processi

Transcription

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-directed RNA polymerase II subunit RPB11-b1
Short name:
RNA polymerase II subunit B11-b1
Short name:
RPB11b1
Alternative name(s):
DNA-directed RNA polymerase II subunit J2
Gene namesi
Name:POLR2J2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 7

Organism-specific databases

HGNCiHGNC:23208. POLR2J2.

Subcellular locationi

Nucleus By similarity

GO - Cellular componenti

  1. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

DNA-directed RNA polymerase, Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA164724655.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 115115DNA-directed RNA polymerase II subunit RPB11-b1PRO_0000316946Add
BLAST

Proteomic databases

PaxDbiQ9GZM3.
PRIDEiQ9GZM3.

PTM databases

PhosphoSiteiQ9GZM3.

Expressioni

Tissue specificityi

Ubiquitously expressed.1 Publication

Gene expression databases

BgeeiQ9GZM3.
GenevestigatoriQ9GZM3.

Organism-specific databases

HPAiHPA044010.
HPA046970.

Interactioni

Subunit structurei

Component of the RNA polymerase II (Pol II) complex consisting of 12 subunits.

Protein-protein interaction databases

BioGridi139239. 1 interaction.
STRINGi9606.ENSP00000402065.

Structurei

3D structure databases

ProteinModelPortaliQ9GZM3.
SMRiQ9GZM3. Positions 1-106.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG1761.
GeneTreeiENSGT00550000074975.
HOGENOMiHOG000179862.
HOVERGENiHBG073419.
InParanoidiQ9GZM3.
KOiK03008.

Family and domain databases

InterProiIPR009025. RBP11-like_dimer.
IPR008193. RNA_pol_Rpb11_13-16kDa_CS.
[Graphical view]
SUPFAMiSSF55257. SSF55257. 1 hit.
PROSITEiPS01154. RNA_POL_L_13KD. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9GZM3-1) [UniParc]FASTAAdd to basket

Also known as: RPB11b1-alpha

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MNAPPAFESF LLFEGEKITI NKDTKVPKAC LFTINKEDHT LGNIIKSQLL
60 70 80 90 100
KDPQVLFAGY KVPHPLEHKI IIRVQTTPDY SPQEAFTNAI TDLISELSLL
110
EERFRTCLLP LRLLP
Length:115
Mass (Da):13,088
Last modified:April 16, 2014 - v2
Checksum:i05310B30C071AD1E
GO
Isoform 2 (identifier: Q9GZM3-2) [UniParc]FASTAAdd to basket

Also known as: RPB11b1-beta

The sequence of this isoform differs from the canonical sequence as follows:
     48-115: QLLKDPQVLF...TCLLPLRLLP → RACFPFAFCR...SRPVQQPQHL

Show »
Length:116
Mass (Da):12,733
Checksum:iFD0CDC23780535EA
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti28 – 281K → N.2 Publications
Corresponds to variant rs74556368 [ dbSNP | Ensembl ].
VAR_070807

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei48 – 11568QLLKD…LRLLP → RACFPFAFCRDCQFPEASPA TLPVQPAELCPRAHQLCAPA LKRHLGGEAHPVHLHAGAAS RPVQQPQHL in isoform 2. 2 PublicationsVSP_030820Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ277931 Genomic DNA. Translation: CAC18332.1.
AJ277739 mRNA. Translation: CAC18329.1.
AJ277740 mRNA. Translation: CAC18330.1.
AC105052 Genomic DNA. No translation available.
BC086857 mRNA. Translation: AAH86857.1.
CCDSiCCDS43627.1. [Q9GZM3-1]
RefSeqiNP_001091084.2. NM_001097615.2.
NP_116581.3. NM_032959.5. [Q9GZM3-1]
XP_006716095.1. XM_006716032.1.
XP_006716096.1. XM_006716033.1.
UniGeneiHs.610255.
Hs.656696.
Hs.700609.
Hs.732239.

Genome annotation databases

EnsembliENST00000333432; ENSP00000330898; ENSG00000267645. [Q9GZM3-1]
ENST00000476151; ENSP00000418603; ENSG00000267645. [Q9GZM3-1]
GeneIDi246721.
548644.
KEGGihsa:246721.
hsa:548644.
UCSCiuc003vah.3. human.
uc011kkw.1. human. [Q9GZM3-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ277931 Genomic DNA. Translation: CAC18332.1.
AJ277739 mRNA. Translation: CAC18329.1.
AJ277740 mRNA. Translation: CAC18330.1.
AC105052 Genomic DNA. No translation available.
BC086857 mRNA. Translation: AAH86857.1.
CCDSiCCDS43627.1. [Q9GZM3-1]
RefSeqiNP_001091084.2. NM_001097615.2.
NP_116581.3. NM_032959.5. [Q9GZM3-1]
XP_006716095.1. XM_006716032.1.
XP_006716096.1. XM_006716033.1.
UniGeneiHs.610255.
Hs.656696.
Hs.700609.
Hs.732239.

3D structure databases

ProteinModelPortaliQ9GZM3.
SMRiQ9GZM3. Positions 1-106.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi139239. 1 interaction.
STRINGi9606.ENSP00000402065.

PTM databases

PhosphoSiteiQ9GZM3.

Proteomic databases

PaxDbiQ9GZM3.
PRIDEiQ9GZM3.

Protocols and materials databases

DNASUi548644.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000333432; ENSP00000330898; ENSG00000267645. [Q9GZM3-1]
ENST00000476151; ENSP00000418603; ENSG00000267645. [Q9GZM3-1]
GeneIDi246721.
548644.
KEGGihsa:246721.
hsa:548644.
UCSCiuc003vah.3. human.
uc011kkw.1. human. [Q9GZM3-1]

Organism-specific databases

CTDi246721.
548644.
GeneCardsiGC07M102282.
HGNCiHGNC:23208. POLR2J2.
HPAiHPA044010.
HPA046970.
MIMi609881. gene.
neXtProtiNX_Q9GZM3.
PharmGKBiPA164724655.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiCOG1761.
GeneTreeiENSGT00550000074975.
HOGENOMiHOG000179862.
HOVERGENiHBG073419.
InParanoidiQ9GZM3.
KOiK03008.

Miscellaneous databases

GeneWikiiPOLR2J2.
NextBioi112313.
PROiQ9GZM3.
SOURCEiSearch...

Gene expression databases

BgeeiQ9GZM3.
GenevestigatoriQ9GZM3.

Family and domain databases

InterProiIPR009025. RBP11-like_dimer.
IPR008193. RNA_pol_Rpb11_13-16kDa_CS.
[Graphical view]
SUPFAMiSSF55257. SSF55257. 1 hit.
PROSITEiPS01154. RNA_POL_L_13KD. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "A human RNA polymerase II subunit is encoded by a recently generated multigene family."
    Grandemange S., Schaller S., Yamano S., Du Manoir S., Shpakovski G.V., Mattei M.-G., Kedinger C., Vigneron M.
    BMC Mol. Biol. 2:14-14(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA] (ISOFORMS 1 AND 2), TISSUE SPECIFICITY, VARIANT ASN-28.
    Tissue: Cervix carcinoma and Placenta.
  2. "The DNA sequence of human chromosome 7."
    Hillier L.W., Fulton R.S., Fulton L.A., Graves T.A., Pepin K.H., Wagner-McPherson C., Layman D., Maas J., Jaeger S., Walker R., Wylie K., Sekhon M., Becker M.C., O'Laughlin M.D., Schaller M.E., Fewell G.A., Delehaunty K.D., Miner T.L.
    , Nash W.E., Cordes M., Du H., Sun H., Edwards J., Bradshaw-Cordum H., Ali J., Andrews S., Isak A., Vanbrunt A., Nguyen C., Du F., Lamar B., Courtney L., Kalicki J., Ozersky P., Bielicki L., Scott K., Holmes A., Harkins R., Harris A., Strong C.M., Hou S., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Leonard S., Rohlfing T., Rock S.M., Tin-Wollam A.-M., Abbott A., Minx P., Maupin R., Strowmatt C., Latreille P., Miller N., Johnson D., Murray J., Woessner J.P., Wendl M.C., Yang S.-P., Schultz B.R., Wallis J.W., Spieth J., Bieri T.A., Nelson J.O., Berkowicz N., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Bedell J.A., Mardis E.R., Clifton S.W., Chissoe S.L., Marra M.A., Raymond C., Haugen E., Gillett W., Zhou Y., James R., Phelps K., Iadanoto S., Bubb K., Simms E., Levy R., Clendenning J., Kaul R., Kent W.J., Furey T.S., Baertsch R.A., Brent M.R., Keibler E., Flicek P., Bork P., Suyama M., Bailey J.A., Portnoy M.E., Torrents D., Chinwalla A.T., Gish W.R., Eddy S.R., McPherson J.D., Olson M.V., Eichler E.E., Green E.D., Waterston R.H., Wilson R.K.
    Nature 424:157-164(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "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] (ISOFORM 2), VARIANT ASN-28.
    Tissue: Lung.
  4. "The thymocyte-specific MAR binding protein, SATB1, interacts in vitro with a novel variant of DNA-directed RNA polymerase II, subunit 11."
    Durrin L.K., Krontiris T.G.
    Genomics 79:809-817(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH SATB1.

Entry informationi

Entry nameiRPB1B_HUMAN
AccessioniPrimary (citable) accession number: Q9GZM3
Secondary accession number(s): F6W009, Q9H1A8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: April 16, 2014
Last modified: March 4, 2015
This is version 104 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 7
    Human chromosome 7: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.