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Protein

Histone-lysine N-methyltransferase SETD1B-A

Gene

setd1ba

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Histone methyltransferase that specifically methylates 'Lys-4' of histone H3, when part of the SET1 histone methyltransferase (HMT) complex, but not if the neighboring 'Lys-9' residue is already methylated. H3 'Lys-4' methylation represents a specific tag for epigenetic transcriptional activation (By similarity).By similarity

Catalytic activityi

S-adenosyl-L-methionine + L-lysine-[histone] = S-adenosyl-L-homocysteine + N(6)-methyl-L-lysine-[histone].

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Activator, Chromatin regulator, Methyltransferase, Transferase

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

RNA-binding, S-adenosyl-L-methionine

Names & Taxonomyi

Protein namesi
Recommended name:
Histone-lysine N-methyltransferase SETD1B-A (EC:2.1.1.43)
Alternative name(s):
SET domain-containing protein 1B-A
Gene namesi
Name:setd1ba
Synonyms:setd1b
ORF Names:si:dkey-237o15.4
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
ProteomesiUP000000437 Componenti: Unplaced

Organism-specific databases

ZFINiZDB-GENE-050309-289. setd1ba.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 18441844Histone-lysine N-methyltransferase SETD1B-APRO_0000316996Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1138 – 11381Phosphoserine1 Publication

Keywords - PTMi

Phosphoprotein

Structurei

3D structure databases

ProteinModelPortaliQ1LY77.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini128 – 21689RRMPROSITE-ProRule annotationAdd
BLAST
Domaini1705 – 1822118SETPROSITE-ProRule annotationAdd
BLAST
Domaini1828 – 184417Post-SETPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi375 – 786412Pro-richAdd
BLAST
Compositional biasi952 – 1116165Glu-richAdd
BLAST
Compositional biasi1000 – 108081Ser-richAdd
BLAST
Compositional biasi1172 – 1435264Pro-richAdd
BLAST

Sequence similaritiesi

Belongs to the class V-like SAM-binding methyltransferase superfamily.PROSITE-ProRule annotation
Contains 1 post-SET domain.PROSITE-ProRule annotation
Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation
Contains 1 SET domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG2940.
HOGENOMiHOG000168216.
HOVERGENiHBG055596.
InParanoidiQ1LY77.
KOiK11422.
PhylomeDBiQ1LY77.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR024657. COMPASS_Set1_N-SET.
IPR012677. Nucleotide-bd_a/b_plait.
IPR003616. Post-SET_dom.
IPR000504. RRM_dom.
IPR001214. SET_dom.
[Graphical view]
PfamiPF11764. N-SET. 1 hit.
PF00076. RRM_1. 1 hit.
PF00856. SET. 1 hit.
[Graphical view]
SMARTiSM00508. PostSET. 1 hit.
SM00360. RRM. 1 hit.
SM00317. SET. 1 hit.
[Graphical view]
PROSITEiPS50868. POST_SET. 1 hit.
PS50102. RRM. 1 hit.
PS50280. SET. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q1LY77-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MCWKVEIVVY CKRQKPQTRG TQYVPGERNK LNEDHGRRQS SSLANGMDNS
60 70 80 90 100
HPICSSGEKR SHHWRSYKLI IDPALKKGSH KVYRYDGHQF STPSFGMSPV
110 120 130 140 150
DIVRDPRIGR LWTKYKETDL PVPKFKIDEC YVGRVPPKEV TFAKLNDNVR
160 170 180 190 200
EGFLTDMCKK FGDIEEVEIL YNPKNKKHLG IAKVVFETVK AAKDAVQNLH
210 220 230 240 250
NTSVMGNIIH VELDPKGENR QRYFQRLING SYTPLTLPVG GEEACDVSPR
260 270 280 290 300
SLAEALMACE PSRRLFEGGS SVVAGTTPSG TNTPMSLDTA YSSLRQDTPQ
310 320 330 340 350
SQGTPHTPRP SGTPFSQDSS YSSRQGTPAF QANRAESSGG YKSRRHETKF
360 370 380 390 400
QDAYNRRPER RYVHGPTQRG NTEQPPSFKQ HQPPEPPSPA FTHTPPPPTS
410 420 430 440 450
ANFKTAYSQY QPPIPQEYTV ASYHQPVQRE LDYRRPPQAP PPPSTDFLPV
460 470 480 490 500
RDRPTTPPIP EPPPAPETQP TTPPSSTPEP CPSPTQESER NSLDSRIEML
510 520 530 540 550
LKPFLNERGD SDAEVRMDGS PISSSSSQLS PIPPQRPSRP SSTGLEDISP
560 570 580 590 600
TPLPDSEDDE PIRGTASLLA NSRGMSPTNM HSKSCVGEPR TAIDKMDTGH
610 620 630 640 650
QSSGEDMEIS DDEMPGTPIA SGDCDKNIVV NSALSLIQTI PMPPPGFPPL
660 670 680 690 700
PHAAGFPLPP HHLPHHSTVS HLPSHHPMLH PLHSYGMMHF LPVDLLSSLP
710 720 730 740 750
QLLQMPFQMQ TQMLSRMAQS QHPYAYPYPA PSANPAAMPF GGPYPPLSVV
760 770 780 790 800
SAPADTLHGQ PWPLPSMPQF NPAVPPPGYE PQKEDPHKAT IDGVLMAIVK
810 820 830 840 850
ELKAIMKKDL NRKMVEVVAF RKFDEWWDKQ ELSAKATLTP VKTGEGKDEE
860 870 880 890 900
KERAKPKETM SSHLPWNKGE GLGFEGMGLG IGLRGIRLPS FKVKRKQPPE
910 920 930 940 950
PTSTSDNKRV RPSTPVDDEL EDEESERMGR TDGSRVDPAG SSSKRRPARP
960 970 980 990 1000
LELDSEGEEE EETSGKEESS LSDHEEEPVD DASERLSSGK DLEEEDEKKS
1010 1020 1030 1040 1050
ESHSSESESS DSSDDEASSS SSSKSGSDSS GSESSSDYES SSEEEEEEEE
1060 1070 1080 1090 1100
EEERIVGMDD EEDVDARTST SSSTTSTSSS DEEEVVEVKA PSTPTGPPPE
1110 1120 1130 1140 1150
EEPNELGRLE AVDEAEIDHK PSMVSLIKTK VEEVRPPSPK GLPADELDVD
1160 1170 1180 1190 1200
LEVKIPVPKT EASLEEVGNL RPPTPTGSFA DSDQDTRPKI PTEDFPRTPG
1210 1220 1230 1240 1250
HEGPVPLESE TTVPRSLPTP SMHLPLPPSH VPDPQSLLPP PETLPDMPVR
1260 1270 1280 1290 1300
GRLPTEEDIP RTPGRDLMDR ARGLGKLQST DTVPVTPGSD TPLTGNSLSS
1310 1320 1330 1340 1350
PHILGSPFSY PAQSPVLSAG IPRTPGRDLT FAPAFPDSAG LSAGLPIHRK
1360 1370 1380 1390 1400
ASSEILEEKP LFKEPLLSAS PQASLPNNAA SSPFPGPPLP TASLPEPALP
1410 1420 1430 1440 1450
PQGSPPASIE NSFPASPKEL PVPMIDVPVP LDDTPSKKKL VRSKNKKGIQ
1460 1470 1480 1490 1500
DSEEPQVTLI EASSLPELPV NNQYPDLPSE SIKEEDGEPA FSEKEESQVP
1510 1520 1530 1540 1550
TIIPKVEETS FYVEEPIQKT RRQRRGWQEL LLSMHSPVAS PRRPSFMPRS
1560 1570 1580 1590 1600
DFEEMTILYD IWNDGIDEED IRYLKITYDK MLQQDNAHDW LNDTLWVHHP
1610 1620 1630 1640 1650
PTNMGSATGV KKKRKEDGIR DHVTGCARSE GYYKIDKKDK MKYLNSSRLQ
1660 1670 1680 1690 1700
SEEPDVDTQG KSIPAQPQVS TRAGSERRSE QRRLLSSFSC DSDLLKFNQL
1710 1720 1730 1740 1750
KFRKKKIRFC RSHIHDWGLF AMEPIAADEM VIEYVGQNIR QVIADMREKR
1760 1770 1780 1790 1800
YEDEGIGSSY MFRVDHDTII DATKCGNFAR FINHSCNPNC YAKVITVESQ
1810 1820 1830 1840
KKIVIYSRQP INVNEEITYD YKFPIEDEKI PCLCGAENCR GTLN
Length:1,844
Mass (Da):204,141
Last modified:February 20, 2007 - v2
Checksum:i020BC92CCB797E27
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX088560 Genomic DNA. Translation: CAK10781.2.
DQ851809 mRNA. Translation: ABI34481.1.
RefSeqiNP_001038599.2. NM_001045134.2.
UniGeneiDr.80156.

Genome annotation databases

GeneIDi567970.
KEGGidre:567970.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX088560 Genomic DNA. Translation: CAK10781.2.
DQ851809 mRNA. Translation: ABI34481.1.
RefSeqiNP_001038599.2. NM_001045134.2.
UniGeneiDr.80156.

3D structure databases

ProteinModelPortaliQ1LY77.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi567970.
KEGGidre:567970.

Organism-specific databases

CTDi567970.
ZFINiZDB-GENE-050309-289. setd1ba.

Phylogenomic databases

eggNOGiCOG2940.
HOGENOMiHOG000168216.
HOVERGENiHBG055596.
InParanoidiQ1LY77.
KOiK11422.
PhylomeDBiQ1LY77.

Miscellaneous databases

NextBioi20888944.
PROiQ1LY77.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR024657. COMPASS_Set1_N-SET.
IPR012677. Nucleotide-bd_a/b_plait.
IPR003616. Post-SET_dom.
IPR000504. RRM_dom.
IPR001214. SET_dom.
[Graphical view]
PfamiPF11764. N-SET. 1 hit.
PF00076. RRM_1. 1 hit.
PF00856. SET. 1 hit.
[Graphical view]
SMARTiSM00508. PostSET. 1 hit.
SM00360. RRM. 1 hit.
SM00317. SET. 1 hit.
[Graphical view]
PROSITEiPS50868. POST_SET. 1 hit.
PS50102. RRM. 1 hit.
PS50280. SET. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The zebrafish reference genome sequence and its relationship to the human genome."
    Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M., Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I., Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J.
    , White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y., Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B., Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S., Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M., Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J., Clee C., Oliver K., Clark R., Riddle C., Eliott D., Threadgold G., Harden G., Ware D., Mortimer B., Kerry G., Heath P., Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S., Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J., Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J., Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D., McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S., Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E., Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A., Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P., Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J., Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E., Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C., Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C., Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M., Oberlander M., Rudolph-Geiger S., Teucke M., Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M., Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M., de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C., Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.
    Nature 496:498-503(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Tuebingen.
  2. "Genome-wide survey and developmental expression mapping of zebrafish SET domain-containing genes."
    Sun X.-J., Xu P.-F., Zhou T., Hu M., Fu C.-T., Zhang Y., Jin Y., Chen Y., Chen S.-J., Huang Q.-H., Liu T.X., Chen Z.
    PLoS ONE 3:E1499-E1499(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 1585-1740.
  3. "Online automated in vivo zebrafish phosphoproteomics: from large-scale analysis down to a single embryo."
    Lemeer S., Pinkse M.W.H., Mohammed S., van Breukelen B., den Hertog J., Slijper M., Heck A.J.R.
    J. Proteome Res. 7:1555-1564(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-1138, IDENTIFICATION BY MASS SPECTROMETRY.
    Tissue: Embryo.

Entry informationi

Entry nameiSE1BA_DANRE
AccessioniPrimary (citable) accession number: Q1LY77
Secondary accession number(s): A5XCC0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: February 20, 2007
Last modified: May 27, 2015
This is version 71 of the entry and version 2 of the sequence. [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

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.