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Q9SGH2

- MBD9_ARATH

UniProt

Q9SGH2 - MBD9_ARATH

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Protein

Methyl-CpG-binding domain-containing protein 9

Gene
MBD9, At3g01460, F4P13.1, T13O15.10
Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at transcript leveli

Functioni

Probable transcriptional regulator that acts as a histone acetyltransferase. Mediates the acetylation of histone H3 and H4 of target loci (e.g. FLC). Involved in an auxin-independent regulation of shoot branching and flowering time.2 Publications

Catalytic activityi

Acetyl-CoA + [histone] = CoA + acetyl-[histone].

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri83 – 13351PHD-type 1Add
BLAST
Zinc fingeri86 – 13146RING-type 1; degenerateAdd
BLAST
Zinc fingeri1287 – 133751PHD-type 2Add
BLAST
Zinc fingeri1290 – 133546RING-type 2; degenerateAdd
BLAST

GO - Molecular functioni

  1. histone acetyltransferase activity Source: UniProtKB
  2. histone binding Source: UniProtKB
  3. methyl-CpG binding Source: TAIR
  4. zinc ion binding Source: InterPro

GO - Biological processi

  1. histone acetylation Source: UniProtKB
  2. histone H3 acetylation Source: UniProtKB
  3. histone H4 acetylation Source: UniProtKB
  4. photoperiodism, flowering Source: TAIR
  5. regulation of transcription, DNA-templated Source: TAIR
  6. secondary shoot formation Source: TAIR
  7. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Methyl-CpG-binding domain-containing protein 9 (EC:2.3.1.48)
Short name:
AtMBD9
Short name:
MBD09
Alternative name(s):
Histone acetyl transferase MBD9
Methyl-CpG-binding protein MBD9
Gene namesi
Name:MBD9
Ordered Locus Names:At3g01460
ORF Names:F4P13.1, T13O15.10
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 3

Organism-specific databases

TAIRiAT3G01460.

Subcellular locationi

Nucleus 1 Publication

GO - Cellular componenti

  1. nucleus Source: UniProtKB
  2. plasmodesma Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Disruption phenotypei

Over-methylated genomic DNA. Increased shoot branching and reduced transcription of FLC leading to early flowering, associated with a decrease in the acetylation level in histone H3 and H4 of FLC chromatin.2 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 21762176Methyl-CpG-binding domain-containing protein 9PRO_0000405285Add
BLAST

Proteomic databases

PaxDbiQ9SGH2.
PRIDEiQ9SGH2.

Expressioni

Tissue specificityi

Expressed in leaves, buds, flowers and stems.2 Publications

Gene expression databases

GenevestigatoriQ9SGH2.

Interactioni

Subunit structurei

Interacts with histone H4.

Protein-protein interaction databases

STRINGi3702.AT3G01460.1-P.

Structurei

3D structure databases

ProteinModelPortaliQ9SGH2.
SMRiQ9SGH2. Positions 82-133, 267-308, 1180-1240, 1290-1334.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini258 – 32770MBDAdd
BLAST
Domaini403 – 45654FYR N-terminalAdd
BLAST
Domaini550 – 698149FYR C-terminalAdd
BLAST
Repeati1098 – 113740PumilioAdd
BLAST
Domaini1157 – 122872BromoAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili491 – 51121 Reviewed predictionAdd
BLAST
Coiled coili1251 – 127323 Reviewed predictionAdd
BLAST
Coiled coili1410 – 143728 Reviewed predictionAdd
BLAST
Coiled coili1588 – 162841 Reviewed predictionAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi914 – 9218Nuclear localization signal By similarity
Motifi1124 – 11318Nuclear localization signal By similarity
Motifi1256 – 12638Nuclear localization signal By similarity
Motifi1337 – 13448Nuclear localization signal By similarity
Motifi1761 – 17688Nuclear localization signal By similarity

Domaini

The methyl-CpG-binding domain (MBD) functions both in binding to methylated DNA and in protein interactions By similarity.

Sequence similaritiesi

Contains 1 bromo domain.
Contains 1 pumilio repeat.

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri83 – 13351PHD-type 1Add
BLAST
Zinc fingeri86 – 13146RING-type 1; degenerateAdd
BLAST
Zinc fingeri1287 – 133751PHD-type 2Add
BLAST
Zinc fingeri1290 – 133546RING-type 2; degenerateAdd
BLAST

Keywords - Domaini

Bromodomain, Coiled coil, Repeat, Zinc-finger

Phylogenomic databases

eggNOGiNOG79337.
HOGENOMiHOG000153462.
InParanoidiQ9SGH2.
OMAiFEEICSK.
PhylomeDBiQ9SGH2.

Family and domain databases

Gene3Di3.30.40.10. 2 hits.
InterProiIPR016177. DNA-bd_dom.
IPR003889. FYrich_C.
IPR003888. FYrich_N.
IPR001739. Methyl_CpG_DNA-bd.
IPR028942. WHIM1_dom.
IPR019786. Zinc_finger_PHD-type_CS.
IPR011011. Znf_FYVE_PHD.
IPR001965. Znf_PHD.
IPR019787. Znf_PHD-finger.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PfamiPF05965. FYRC. 1 hit.
PF05964. FYRN. 1 hit.
PF01429. MBD. 1 hit.
PF00628. PHD. 2 hits.
PF15612. WHIM1. 1 hit.
[Graphical view]
SMARTiSM00249. PHD. 2 hits.
SM00184. RING. 2 hits.
[Graphical view]
SUPFAMiSSF54171. SSF54171. 1 hit.
SSF57903. SSF57903. 2 hits.
PROSITEiPS51543. FYRC. 1 hit.
PS51542. FYRN. 1 hit.
PS50982. MBD. 1 hit.
PS01359. ZF_PHD_1. 2 hits.
PS50016. ZF_PHD_2. 2 hits.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: Q9SGH2-1) [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

MEPTDSTNEQ LGDTKTAAVK EESRSFLGID LNEIPTGATL GGGCTAGQDD     50
DGEYEPVEVV RSIHDNPDPA PGAPAEVPEP DRDASCGACG RPESIELVVV 100
CDACERGFHM SCVNDGVEAA PSADWMCSDC RTGGERSKLW PLGVKSKLIL 150
DMNASPPSDA EGYGAEETSD SRKHMLASSS CIGNSFDYAM MHSSFSSLGR 200
GHASLEASGL MSRNTKMSMD ALGSHNLGFG FPLNLNNSSL PMRFPSLDPS 250
ELFLQNLRHF ISERHGVLED GWRVEFRQPL NGYQLCAVYC APNGKTFSSI 300
QEVACYLGLA INGNYSCMDA EIRNENSLLQ ERLHTPKRRK TSRWPNNGFP 350
EQKGSSVSAQ LRRFPFNGQT MSPFAVKSGT HFQAGGSLSS GNNGCGCEEA 400
KNGCPMQFED FFVLSLGRID IRQSYHNVNV IYPIGYKSCW HDKITGSLFT 450
CEVSDGNSGP IFKVTRSPCS KSFIPAGSTV FSCPKIDEMV EQNSDKLSNR 500
RDSTQERDDD ASVEILLSEH CPPLGDDILS CLREKSFSKT VNSLRSEVDS 550
SRVDFDKNLS YDQDHGVEIG DIVVEEDSLS DAWKKVSQKL VDACSIVLKQ 600
KGTLNFLCKH VDRETSEINW DTMNEKDNVI LSLSKFCCSL APCSVTCGEK 650
DKSEFAAVVD ALSRWLDQNR FGLDADFVQE MIEHMPGAES CTNYRTLKSR 700
SSSSVPITVA EGALVVKPKG GENVKDEVFG EISRKAKKPK LNGGHGVRNL 750
HPPPGRPMCL RLPPGLVGDF LQVSEVFWRF HEILGFEEAF SPENLEQELI 800
NPVFDGLFLD KPGKDDKRSE INFTDKDSTA TKLFSLFDES RQPFPAKNTS 850
ASELKEKKAG DSSDFKISDS SRGSCVGALL TRAHISLLQV LICELQSKVA 900
AFVDPNFDSG ESRSRRGRKK DDSTLSAKRN KLHMLPVNEF TWPELARRYI 950
LSLLSMDGNL ESAEIAARES GKVFRCLQGD GGLLCGSLTG VAGMEADSML 1000
LAEAIKKISG SLTSENDVLS VEDDDSDGLD ATETNTCSGD IPEWAQVLEP 1050
VKKLPTNVGT RIRKCVYEAL ERNPPEWAKK ILEHSISKEI YKGNASGPTK 1100
KAVLSLLADI RGGDLVQRSI KGTKKRTYIS VSDVIMKKCR AVLRGVAAAD 1150
EDKVLCTLLG RKLLNSSDND DDGLLGSPAM VSRPLDFRTI DLRLAAGAYD 1200
GSTEAFLEDV LELWSSIRVM YADQPDCVDL VATLSEKFKS LYEAEVVPLV 1250
QKLKDYRKLE CLSAEMKKEI KDIVVSVNKL PKAPWDEGVC KVCGVDKDDD 1300
SVLLCDTCDA EYHTYCLNPP LIRIPDGNWY CPSCVIAKRM AQEALESYKL 1350
VRRRKGRKYQ GELTRASMEL TAHLADVMEE KDYWEFSAEE RILLLKLLCD 1400
ELLSSSLVHQ HLEQCAEAII EMQQKLRSLS SEWKNAKMRQ EFLTAKLAKV 1450
EPSILKEVGE PHNSSYFADQ MGCDPQPQEG VGDGVTRDDE TSSTAYLNKN 1500
QGKSPLETDT QPGESHVNFG ESKISSPETI SSPGRHELPI ADTSPLVTDN 1550
LPEKDTSETL LKSVGRNHET HSPNSNAVEL PTAHDASSQA SQELQACQQD 1600
LSATSNEIQN LQQSIRSIES QLLKQSIRRD FLGTDASGRL YWGCCFPDEN 1650
PRILVDGSIS LQKPVQADLI GSKVPSPFLH TVDHGRLRLS PWTYYETETE 1700
ISELVQWLHD DDLKERDLRE SILWWKRLRY GDVQKEKKQA QNLSAPVFAT 1750
GLETKAAMSM EKRYGPCIKL EMETLKKRGK KTKVAEREKL CRCECLESIL 1800
PSMIHCLICH KTFASDDEFE DHTESKCIPY SLATEEGKDI SDSSKAKESL 1850
KSDYLNVKSS AGKDVAEISN VSELDSGLIR YQEEESISPY HFEEICSKFV 1900
TKDCNRDLVK EIGLISSNGI PTFLPSSSTH LNDSVLISAK SNKPDGGDSG 1950
DQVIFAGPET NVEGLNSESN MSFDRSVTDS HGGPLDKPSG LGFGFSEQKN 2000
KKSSGSGLKS CCVVPQAALK RVTGKALPGF RFLKTNLLDM DVALPEEALR 2050
PSKSHPNRRR AWRVFVKSSQ SIYELVQATI VVEDMIKTEY LKNEWWYWSS 2100
LSAAAKISTL SALSVRIFSL DAAIIYDKPI TPSNPIDETK PIISLPDQKS 2150
QPVSDSQERS SRVRRSGKKR KEPEGS 2176
Length:2,176
Mass (Da):240,431
Last modified:May 1, 2000 - v1
Checksum:i05DBD955D895C3D5
GO
Isoform 2 (identifier: Q9SGH2-2)

Sequence is not available
Length:
Mass (Da):

Sequence cautioni

The sequence AAF01531.1 differs from that shown. Reason: Erroneous gene model prediction.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AC009325 Genomic DNA. Translation: AAF01531.1. Sequence problems.
AC010870 Genomic DNA. Translation: AAF24616.1.
CP002686 Genomic DNA. Translation: AEE73669.1.
RefSeqiNP_186795.1. NM_111012.3. [Q9SGH2-1]
UniGeneiAt.41275.
At.47815.

Genome annotation databases

EnsemblPlantsiAT3G01460.1; AT3G01460.1; AT3G01460. [Q9SGH2-1]
GeneIDi821132.
KEGGiath:AT3G01460.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Web resourcesi

The Chromatin Database (ChromDB)

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AC009325 Genomic DNA. Translation: AAF01531.1 . Sequence problems.
AC010870 Genomic DNA. Translation: AAF24616.1 .
CP002686 Genomic DNA. Translation: AEE73669.1 .
RefSeqi NP_186795.1. NM_111012.3. [Q9SGH2-1 ]
UniGenei At.41275.
At.47815.

3D structure databases

ProteinModelPortali Q9SGH2.
SMRi Q9SGH2. Positions 82-133, 267-308, 1180-1240, 1290-1334.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 3702.AT3G01460.1-P.

Proteomic databases

PaxDbi Q9SGH2.
PRIDEi Q9SGH2.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblPlantsi AT3G01460.1 ; AT3G01460.1 ; AT3G01460 . [Q9SGH2-1 ]
GeneIDi 821132.
KEGGi ath:AT3G01460.

Organism-specific databases

TAIRi AT3G01460.

Phylogenomic databases

eggNOGi NOG79337.
HOGENOMi HOG000153462.
InParanoidi Q9SGH2.
OMAi FEEICSK.
PhylomeDBi Q9SGH2.

Gene expression databases

Genevestigatori Q9SGH2.

Family and domain databases

Gene3Di 3.30.40.10. 2 hits.
InterProi IPR016177. DNA-bd_dom.
IPR003889. FYrich_C.
IPR003888. FYrich_N.
IPR001739. Methyl_CpG_DNA-bd.
IPR028942. WHIM1_dom.
IPR019786. Zinc_finger_PHD-type_CS.
IPR011011. Znf_FYVE_PHD.
IPR001965. Znf_PHD.
IPR019787. Znf_PHD-finger.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view ]
Pfami PF05965. FYRC. 1 hit.
PF05964. FYRN. 1 hit.
PF01429. MBD. 1 hit.
PF00628. PHD. 2 hits.
PF15612. WHIM1. 1 hit.
[Graphical view ]
SMARTi SM00249. PHD. 2 hits.
SM00184. RING. 2 hits.
[Graphical view ]
SUPFAMi SSF54171. SSF54171. 1 hit.
SSF57903. SSF57903. 2 hits.
PROSITEi PS51543. FYRC. 1 hit.
PS51542. FYRN. 1 hit.
PS50982. MBD. 1 hit.
PS01359. ZF_PHD_1. 2 hits.
PS50016. ZF_PHD_2. 2 hits.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana."
    Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V., Choisne N., Artiguenave F.
    , Robert C., Brottier P., Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D., de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E., Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S.
    Nature 408:820-822(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  2. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  3. "Ten members of the Arabidopsis gene family encoding methyl-CpG-binding domain proteins are transcriptionally active and at least one, AtMBD11, is crucial for normal development."
    Berg A., Meza T.J., Mahic M., Thorstensen T., Kristiansen K., Aalen R.B.
    Nucleic Acids Res. 31:5291-5304(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: ALTERNATIVE SPLICING, TISSUE SPECIFICITY, GENE FAMILY, NOMENCLATURE.
  4. "Evolutionary divergence of monocot and dicot methyl-CpG-binding domain proteins."
    Springer N.M., Kaeppler S.M.
    Plant Physiol. 138:92-104(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENE FAMILY.
  5. "AtMBD9: a protein with a methyl-CpG-binding domain regulates flowering time and shoot branching in Arabidopsis."
    Peng M., Cui Y., Bi Y.-M., Rothstein S.J.
    Plant J. 46:282-296(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DISRUPTION PHENOTYPE.
  6. "Methyl-CpG-binding domain proteins in plants: interpreters of DNA methylation."
    Zemach A., Grafi G.
    Trends Plant Sci. 12:80-85(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: REVIEW.
  7. "AtMBD9 modulates Arabidopsis development through the dual epigenetic pathways of DNA methylation and histone acetylation."
    Yaish M.W.F., Peng M., Rothstein S.J.
    Plant J. 59:123-135(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DISRUPTION PHENOTYPE, SUBCELLULAR LOCATION, TISSUE SPECIFICITY.

Entry informationi

Entry nameiMBD9_ARATH
AccessioniPrimary (citable) accession number: Q9SGH2
Secondary accession number(s): Q9SSA6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 8, 2011
Last sequence update: May 1, 2000
Last modified: June 11, 2014
This is version 102 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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