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Protein

Mediator of RNA polymerase II transcription subunit 1.1

Gene

sop-3

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors (By similarity).By similarity

GO - Molecular functioni

  1. RNA polymerase II transcription cofactor activity Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Activator

Keywords - Biological processi

Transcription, Transcription regulation

Enzyme and pathway databases

SignaLinkiQ9N4G4.

Names & Taxonomyi

Protein namesi
Recommended name:
Mediator of RNA polymerase II transcription subunit 1.1
Alternative name(s):
Mediator complex subunit 1.1
Suppressor of pal-1 protein 3
Gene namesi
Name:sop-3
Synonyms:mdt-1.1
ORF Names:Y71F9B.10
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
ProteomesiUP000001940: Chromosome I

Organism-specific databases

WormBaseiY71F9B.10a; CE28808; WBGene00004946; sop-3.
Y71F9B.10b; CE29912; WBGene00004946; sop-3.

Subcellular locationi

Nucleus By similarity

GO - Cellular componenti

  1. mediator complex Source: InterPro
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 14751475Mediator of RNA polymerase II transcription subunit 1.1PRO_0000302025Add
BLAST

Proteomic databases

PaxDbiQ9N4G4.
PRIDEiQ9N4G4.

Interactioni

Subunit structurei

Component of the Mediator complex.By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
T04C9.1Q8MPT26EBI-2315681,EBI-2315635

Protein-protein interaction databases

BioGridi37321. 3 interactions.
IntActiQ9N4G4. 1 interaction.

Structurei

3D structure databases

ProteinModelPortaliQ9N4G4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili1098 – 113538Sequence AnalysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi755 – 79945Gln-richAdd
BLAST
Compositional biasi820 – 88263Pro-richAdd
BLAST
Compositional biasi1280 – 1441162Pro-richAdd
BLAST

Sequence similaritiesi

Belongs to the Mediator complex subunit 1 family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiNOG270356.
GeneTreeiENSGT00750000118762.
HOGENOMiHOG000113532.
InParanoidiQ9N4G4.
OMAiVGLASHQ.
OrthoDBiEOG7R830S.

Family and domain databases

InterProiIPR019680. Mediator_Med1_met/fun.
[Graphical view]
PfamiPF10744. Med1. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform a (identifier: Q9N4G4-1) [UniParc]FASTAAdd to Basket

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
MIIEERKNHE LNLESIDRDL RMENVRQSAE KLGWEHFARS VRRNLLEKRQ
60 70 80 90 100
TLDARTRLDV LGSLVFMKEH LPIDNDATIA RKVQQLSEGL GEHCVFSTQN
110 120 130 140 150
SGFSIRNPDV TIDIGVAEDQ ISTCKIGYFG QPLTDAPGAL ALMKNGEFSK
160 170 180 190 200
LRDSITAILS SLPKEITLSE KNACKEAFRA LDQLLIRDAA DSSFTAINTG
210 220 230 240 250
KYGFYAPRNE LRSGRIYYVA EPVLIRLAEK EGKTKADASY LDLLPYIEIS
260 270 280 290 300
FFKHDKPSKL PVFTQTGEWS TFNDANVCIC VRFNQGFLLS QQTIRKLSHI
310 320 330 340 350
VPKSPLVRNY VNFYRYMTGR VGVKSNLKLL TQFPDEGDIQ QQYQVDSKML
360 370 380 390 400
TKEDDVVAME MYLSDFRDLS KLIETLRSEW KHASLWESIL AICESSKGEQ
410 420 430 440 450
KEVNAVDMQL VLRRTEFFLQ FDTDYGSMTM QIFEKSPSNY VVKTTSQITG
460 470 480 490 500
ESPSLDFDKM LTEKLNSTWS IPATLTFAIT DLKCRINSVL NCVISFDSSS
510 520 530 540 550
SSDKQHQNYW SISNNNTQLM QSAAQKSAAK CTKKKVTVLE VGPAIEPTQL
560 570 580 590 600
VYTRENDEEF QGSLLSSFGE VDDYYVKTST IGRTRPQPRP KREPNQLTSM
610 620 630 640 650
DMMSAELDKS RHTMEGSMRD AQTSSFLDAA RVRMKQSIGA AHAVGLASHQ
660 670 680 690 700
PPASPVAAAA AAPGGPMRHN SYPSGFEPPP SVAPYDFPAD PSKKQRKQRA
710 720 730 740 750
KKQPGEEPPA GRGKGGKKGR GAGAVGAAAA GGRKSAGGAG ENPFGMDPMR
760 770 780 790 800
PPMLQRSSSE QHNPNPHQMS QYQMQQYQQN QQFRMHQMQQ QQQQQFQMQS
810 820 830 840 850
PKNPLVPAYT DEDSDEECDP PPPPKPQVST SSRMSSVPSH PPPPPQQLGN
860 870 880 890 900
PMVGYPGMPL QSPNHLPLTP SPLSAPPKPF SPEQQHHFGM KMRETSYWKE
910 920 930 940 950
LERLETKPDV EKLKQQLSSS SSSSQAEASD PPSTSTEAQD PPKPSSSSAP
960 970 980 990 1000
PPPKKKLGLE AAISKIRGQQ EQALQKQLQQ QESVESELAT PHPGSSGAPP
1010 1020 1030 1040 1050
LAPHQVNRAR NLNDIFDDEA DDSSPTADIK PSLQALQKPT DTSSQSTSSE
1060 1070 1080 1090 1100
PPPKKEPADE QPEREKEKLI LKIPKMLKPV VDDRREDRKE RDRDRDRDRD
1110 1120 1130 1140 1150
RDEDREKVRD KEDKAQREKD KKEKERERRR QRDRDRTEQK KSDREKEPSK
1160 1170 1180 1190 1200
KRKLEKKDEK EKDRREPERK KGKSDGKEYS KASTTSLIPT LSLKNFRIPK
1210 1220 1230 1240 1250
KDTVEEEKKD VKEEAPGPSS STESKKEPPS AAPITRKEST TAPVAPAVQQ
1260 1270 1280 1290 1300
QQQRKESFTA LPSLPEQQQH HREPLLKKKP PLQPPPPPQM TGPPIGIYPG
1310 1320 1330 1340 1350
PPAPGNLPGS SRPSGNRKQP LPPPPPMIRG PPPDQMYRDR SGGGGGSMRG
1360 1370 1380 1390 1400
GFPPASHYHG GTSGVNKQVA SYAQGLPPGM GPPVVKPHGN NYQASQWVRP
1410 1420 1430 1440 1450
PTHRDSSHSY HGMPSLGPPQ LQREPPAPPP PQMIPLPKDP PVLREHPREH
1460 1470
RAHRGGADDD GPDSPEEGTL RIDDE
Length:1,475
Mass (Da):164,547
Last modified:October 1, 2001 - v2
Checksum:iC0A80E70DE9CC98B
GO
Isoform b (identifier: Q9N4G4-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     536-544: VTVLEVGPA → ELYALTTSK
     545-1475: Missing.

Note: No experimental confirmation available.

Show »
Length:544
Mass (Da):61,840
Checksum:i478ADA6030DDA18D
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei536 – 5449VTVLEVGPA → ELYALTTSK in isoform b. CuratedVSP_027908
Alternative sequencei545 – 1475931Missing in isoform b. CuratedVSP_027909Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF308860 mRNA. Translation: AAG45416.1.
FO081276 Genomic DNA. Translation: CCD70417.1.
FO081276 Genomic DNA. Translation: CCD70418.1.
RefSeqiNP_001021811.1. NM_001026640.3. [Q9N4G4-2]
NP_740821.1. NM_170837.3. [Q9N4G4-1]
UniGeneiCel.17584.

Genome annotation databases

EnsemblMetazoaiY71F9B.10a; Y71F9B.10a; WBGene00004946. [Q9N4G4-1]
GeneIDi171840.
KEGGicel:CELE_Y71F9B.10.
UCSCiY71F9B.10a.1. c. elegans. [Q9N4G4-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF308860 mRNA. Translation: AAG45416.1.
FO081276 Genomic DNA. Translation: CCD70417.1.
FO081276 Genomic DNA. Translation: CCD70418.1.
RefSeqiNP_001021811.1. NM_001026640.3. [Q9N4G4-2]
NP_740821.1. NM_170837.3. [Q9N4G4-1]
UniGeneiCel.17584.

3D structure databases

ProteinModelPortaliQ9N4G4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi37321. 3 interactions.
IntActiQ9N4G4. 1 interaction.

Proteomic databases

PaxDbiQ9N4G4.
PRIDEiQ9N4G4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiY71F9B.10a; Y71F9B.10a; WBGene00004946. [Q9N4G4-1]
GeneIDi171840.
KEGGicel:CELE_Y71F9B.10.
UCSCiY71F9B.10a.1. c. elegans. [Q9N4G4-1]

Organism-specific databases

CTDi171840.
WormBaseiY71F9B.10a; CE28808; WBGene00004946; sop-3.
Y71F9B.10b; CE29912; WBGene00004946; sop-3.

Phylogenomic databases

eggNOGiNOG270356.
GeneTreeiENSGT00750000118762.
HOGENOMiHOG000113532.
InParanoidiQ9N4G4.
OMAiVGLASHQ.
OrthoDBiEOG7R830S.

Enzyme and pathway databases

SignaLinkiQ9N4G4.

Miscellaneous databases

NextBioi872925.
PROiQ9N4G4.

Family and domain databases

InterProiIPR019680. Mediator_Med1_met/fun.
[Graphical view]
PfamiPF10744. Med1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The novel C. elegans gene sop-3 modulates Wnt signaling to regulate Hox gene expression."
    Zhang H., Emmons S.W.
    Development 128:767-777(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM A).
  2. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
    The C. elegans sequencing consortium
    Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], ALTERNATIVE SPLICING.
    Strain: Bristol N2.

Entry informationi

Entry nameiMED1_CAEEL
AccessioniPrimary (citable) accession number: Q9N4G4
Secondary accession number(s): Q95Y43, Q9GPV1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: October 1, 2001
Last modified: January 7, 2015
This is version 86 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. 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.