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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

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 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri86 – 13146RING-type 1; degenerateAdd
BLAST
Zinc fingeri1287 – 133751PHD-type 2PROSITE-ProRule annotationAdd
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 85-130, 1289-1335.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

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

Coiled coil

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

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi914 – 9218Nuclear localization signalBy similarity
Motifi1124 – 11318Nuclear localization signalBy similarity
Motifi1256 – 12638Nuclear localization signalBy similarity
Motifi1337 – 13448Nuclear localization signalBy similarity
Motifi1761 – 17688Nuclear localization signalBy 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.Curated
Contains 1 FYR C-terminal domain.PROSITE-ProRule annotation
Contains 1 FYR N-terminal domain.PROSITE-ProRule annotation
Contains 1 MBD (methyl-CpG-binding) domain.PROSITE-ProRule annotation
Contains 2 PHD-type zinc fingers.PROSITE-ProRule annotation
Contains 1 pumilio repeat.Curated
Contains 2 RING-type zinc fingers.Curated

Zinc finger

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

        10         20         30         40         50
MEPTDSTNEQ LGDTKTAAVK EESRSFLGID LNEIPTGATL GGGCTAGQDD
60 70 80 90 100
DGEYEPVEVV RSIHDNPDPA PGAPAEVPEP DRDASCGACG RPESIELVVV
110 120 130 140 150
CDACERGFHM SCVNDGVEAA PSADWMCSDC RTGGERSKLW PLGVKSKLIL
160 170 180 190 200
DMNASPPSDA EGYGAEETSD SRKHMLASSS CIGNSFDYAM MHSSFSSLGR
210 220 230 240 250
GHASLEASGL MSRNTKMSMD ALGSHNLGFG FPLNLNNSSL PMRFPSLDPS
260 270 280 290 300
ELFLQNLRHF ISERHGVLED GWRVEFRQPL NGYQLCAVYC APNGKTFSSI
310 320 330 340 350
QEVACYLGLA INGNYSCMDA EIRNENSLLQ ERLHTPKRRK TSRWPNNGFP
360 370 380 390 400
EQKGSSVSAQ LRRFPFNGQT MSPFAVKSGT HFQAGGSLSS GNNGCGCEEA
410 420 430 440 450
KNGCPMQFED FFVLSLGRID IRQSYHNVNV IYPIGYKSCW HDKITGSLFT
460 470 480 490 500
CEVSDGNSGP IFKVTRSPCS KSFIPAGSTV FSCPKIDEMV EQNSDKLSNR
510 520 530 540 550
RDSTQERDDD ASVEILLSEH CPPLGDDILS CLREKSFSKT VNSLRSEVDS
560 570 580 590 600
SRVDFDKNLS YDQDHGVEIG DIVVEEDSLS DAWKKVSQKL VDACSIVLKQ
610 620 630 640 650
KGTLNFLCKH VDRETSEINW DTMNEKDNVI LSLSKFCCSL APCSVTCGEK
660 670 680 690 700
DKSEFAAVVD ALSRWLDQNR FGLDADFVQE MIEHMPGAES CTNYRTLKSR
710 720 730 740 750
SSSSVPITVA EGALVVKPKG GENVKDEVFG EISRKAKKPK LNGGHGVRNL
760 770 780 790 800
HPPPGRPMCL RLPPGLVGDF LQVSEVFWRF HEILGFEEAF SPENLEQELI
810 820 830 840 850
NPVFDGLFLD KPGKDDKRSE INFTDKDSTA TKLFSLFDES RQPFPAKNTS
860 870 880 890 900
ASELKEKKAG DSSDFKISDS SRGSCVGALL TRAHISLLQV LICELQSKVA
910 920 930 940 950
AFVDPNFDSG ESRSRRGRKK DDSTLSAKRN KLHMLPVNEF TWPELARRYI
960 970 980 990 1000
LSLLSMDGNL ESAEIAARES GKVFRCLQGD GGLLCGSLTG VAGMEADSML
1010 1020 1030 1040 1050
LAEAIKKISG SLTSENDVLS VEDDDSDGLD ATETNTCSGD IPEWAQVLEP
1060 1070 1080 1090 1100
VKKLPTNVGT RIRKCVYEAL ERNPPEWAKK ILEHSISKEI YKGNASGPTK
1110 1120 1130 1140 1150
KAVLSLLADI RGGDLVQRSI KGTKKRTYIS VSDVIMKKCR AVLRGVAAAD
1160 1170 1180 1190 1200
EDKVLCTLLG RKLLNSSDND DDGLLGSPAM VSRPLDFRTI DLRLAAGAYD
1210 1220 1230 1240 1250
GSTEAFLEDV LELWSSIRVM YADQPDCVDL VATLSEKFKS LYEAEVVPLV
1260 1270 1280 1290 1300
QKLKDYRKLE CLSAEMKKEI KDIVVSVNKL PKAPWDEGVC KVCGVDKDDD
1310 1320 1330 1340 1350
SVLLCDTCDA EYHTYCLNPP LIRIPDGNWY CPSCVIAKRM AQEALESYKL
1360 1370 1380 1390 1400
VRRRKGRKYQ GELTRASMEL TAHLADVMEE KDYWEFSAEE RILLLKLLCD
1410 1420 1430 1440 1450
ELLSSSLVHQ HLEQCAEAII EMQQKLRSLS SEWKNAKMRQ EFLTAKLAKV
1460 1470 1480 1490 1500
EPSILKEVGE PHNSSYFADQ MGCDPQPQEG VGDGVTRDDE TSSTAYLNKN
1510 1520 1530 1540 1550
QGKSPLETDT QPGESHVNFG ESKISSPETI SSPGRHELPI ADTSPLVTDN
1560 1570 1580 1590 1600
LPEKDTSETL LKSVGRNHET HSPNSNAVEL PTAHDASSQA SQELQACQQD
1610 1620 1630 1640 1650
LSATSNEIQN LQQSIRSIES QLLKQSIRRD FLGTDASGRL YWGCCFPDEN
1660 1670 1680 1690 1700
PRILVDGSIS LQKPVQADLI GSKVPSPFLH TVDHGRLRLS PWTYYETETE
1710 1720 1730 1740 1750
ISELVQWLHD DDLKERDLRE SILWWKRLRY GDVQKEKKQA QNLSAPVFAT
1760 1770 1780 1790 1800
GLETKAAMSM EKRYGPCIKL EMETLKKRGK KTKVAEREKL CRCECLESIL
1810 1820 1830 1840 1850
PSMIHCLICH KTFASDDEFE DHTESKCIPY SLATEEGKDI SDSSKAKESL
1860 1870 1880 1890 1900
KSDYLNVKSS AGKDVAEISN VSELDSGLIR YQEEESISPY HFEEICSKFV
1910 1920 1930 1940 1950
TKDCNRDLVK EIGLISSNGI PTFLPSSSTH LNDSVLISAK SNKPDGGDSG
1960 1970 1980 1990 2000
DQVIFAGPET NVEGLNSESN MSFDRSVTDS HGGPLDKPSG LGFGFSEQKN
2010 2020 2030 2040 2050
KKSSGSGLKS CCVVPQAALK RVTGKALPGF RFLKTNLLDM DVALPEEALR
2060 2070 2080 2090 2100
PSKSHPNRRR AWRVFVKSSQ SIYELVQATI VVEDMIKTEY LKNEWWYWSS
2110 2120 2130 2140 2150
LSAAAKISTL SALSVRIFSL DAAIIYDKPI TPSNPIDETK PIISLPDQKS
2160 2170
QPVSDSQERS SRVRRSGKKR KEPEGS
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. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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 85-130, 1289-1335.
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: November 26, 2014
This is version 105 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