Description:
Transcriptional activator DEMETER (DNA glycosylase-related proteinDME).
Molecular weight: 1928
View which proteins in this organism that is involved with DNA Repair;
classified after biological processes (using data from the GOA project):
base-excision repair( GO:0006284 )
Important dates:
16-MAY-2003, integrated into UniProtKB/Swiss-Prot.
01-OCT-2002, sequence version 1.
07-MAR-2006, entry version 30.
Phylogenetic order:
Eukaryota Viridiplantae Streptophyta Embryophyta Tracheophyta Spermatophyta Magnoliophyta eudicotyledons core eudicotyledons rosids eurosids II Brassicales Brassicaceae Arabidopsis.
To calculate the pI (Isoelectric point - the pH where a protein has a neutral charge),
go to this page and enter the protein ID (e.g 3MG_ECOLI): http://us.expasy.org/tools/pi_tool.html
Links to references in other databases for protein DME_ARATH:
| Database | Pointer | Add. info#1 | Add. info#2 |
| EMBL | AF521596 | AAM77215.1 | - |
| EMBL | AL162875 | CAB85562.1 | ALT_SEQ |
| EMBL | AL162875 | CAB85563.1 | ALT_SEQ |
| EMBL | AL162875 | CAB85564.1 | ALT_SEQ |
| EMBL | AK117994 | BAC42629.1 | - |
| GenomeReviews | BA000015_GR | AT5G04560.1 | |
| TAIR | At5g04560 | -.1 | |
| InterPro | IPR003265 | Endo_3c. | |
| InterPro | IPR004035 | EndoIII_FCL. | |
| InterPro | IPR003651 | FeS_bind. | |
| Pfam | PF00730 | HhH-GPD | 1. |
| SMART | SM00525 | FES | 1. |
| PROSITE | PS00764 | ENDONUCLEASE_III_1 | FALSE_NEG. |
Keywords:
4Fe-4S; Activator; Alternative splicing; DNA-binding; Iron; Iron-sulfur; Metal-binding; Nuclear protein; Transcription; Transcription regulation.
References:
RN [1]
RP NUCLEOTIDE SEQUENCE (ISOFORM 1), FUNCTION, AND CHARACTERIZATION.
RC STRAIN=cv. Columbia; TISSUE=Flower;
RX MEDLINE=22145911; PubMed=12150995; DOI=10.1016/S0092-8674(02)00807-3;
RA Choi Y., Gehring M., Johnson L., Hannon M., Harada J.J.,
RA Goldberg R.B., Jacobsen S.E., Fischer R.L.;
RT "DEMETER, a DNA glycosylase domain protein, is required for endosperm
RT gene imprinting and seed viability in Arabidopsis.";
RL Cell 110:33-42(2002).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX MEDLINE=21016721; PubMed=11130714; DOI=10.1038/35048507;
RA Tabata S., Kaneko T., Nakamura Y., Kotani H., Kato T., Asamizu E.,
RA Miyajima N., Sasamoto S., Kimura T., Hosouchi T., Kawashima K.,
RA Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S.,
RA Nakazaki N., Naruo K., Okumura S., Shinpo S., Takeuchi C., Wada T.,
RA Watanabe A., Yamada M., Yasuda M., Sato S., de la Bastide M.,
RA Huang E., Spiegel L., Gnoj L., O'Shaughnessy A., Preston R.,
RA Habermann K., Murray J., Johnson D., Rohlfing T., Nelson J.,
RA Stoneking T., Pepin K., Spieth J., Sekhon M., Armstrong J., Becker M.,
RA Belter E., Cordum H., Cordes M., Courtney L., Courtney W., Dante M.,
RA Du H., Edwards J., Fryman J., Haakensen B., Lamar E., Latreille P.,
RA Leonard S., Meyer R., Mulvaney E., Ozersky P., Riley A., Strowmatt C.,
RA Wagner-McPherson C., Wollam A., Yoakum M., Bell M., Dedhia N.,
RA Parnell L., Shah R., Rodriguez M., Hoon See L., Vil D., Baker J.,
RA Kirchoff K., Toth K., King L., Bahret A., Miller B., Marra M.A.,
RA Martienssen R., McCombie W.R., Wilson R.K., Murphy G., Bancroft I.,
RA Volckaert G., Wambutt R., Duesterhoeft A., Stiekema W., Pohl T.,
RA Entian K.-D., Terryn N., Hartley N., Bent E., Johnson S.,
RA Langham S.-A., McCullagh B., Robben J., Grymonprez B., Zimmermann W.,
RA Ramsperger U., Wedler H., Balke K., Wedler E., Peters S.,
RA van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R.,
RA Weitzenegger T., Bothe G., Rose M., Hauf J., Berneiser S., Hempel S.,
RA Feldpausch M., Lamberth S., Villarroel R., Gielen J., Ardiles W.,
RA Bents O., Lemcke K., Kolesov G., Mayer K.F.X., Rudd S., Schoof H.,
RA Schueller C., Zaccaria P., Mewes H.-W., Bevan M., Fransz P.F.;
RT "Sequence and analysis of chromosome 5 of the plant Arabidopsis
RT thaliana.";
RL Nature 408:823-826(2000).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
RC STRAIN=cv. Columbia;
RX MEDLINE=21932900; PubMed=11910074; DOI=10.1126/science.1071006;
RA Seki M., Narusaka M., Kamiya A., Ishida J., Satou M., Sakurai T.,
RA Nakajima M., Enju A., Akiyama K., Oono Y., Muramatsu M.,
RA Hayashizaki Y., Kawai J., Carninci P., Itoh M., Ishii Y., Arakawa T.,
RA Shibata K., Shinagawa A., Shinozaki K.;
RT "Functional annotation of a full-length Arabidopsis cDNA collection.";
RL Science 296:141-145(2002).
Feature:
CHAIN 1 1729 Transcriptional activator DEMETER.
/FTId=PRO_0000102245.
REGION 697 796 DEMETER.
COMPBIAS 33 108 Lys-rich (basic).
COMPBIAS 215 367 Gln-rich.
METAL 1371 1371 Iron-sulfur (4Fe-4S) (By similarity).
METAL 1378 1378 Iron-sulfur (4Fe-4S) (By similarity).
METAL 1381 1381 Iron-sulfur (4Fe-4S) (By similarity).
METAL 1387 1387 Iron-sulfur (4Fe-4S) (By similarity).
VARSPLIC 1 1313 Missing (in isoform 2).
/FTId=VSP_007455.
CONFLICT 1421 1421 F -> Y (in Ref. 3).
Comments:
-!- FUNCTION: Transcriptional activator involved in gene imprinting.
Allows the expression of the maternal copy of the imprinted MEA
gene before fertilization, possibly by antagonizing or suppressing
DNA methylation on target promoter. Probably acts by nicking the
MEA promoter. Required for stable reproducible patterns of floral
and vegetative development.
-!- COFACTOR: Binds 1 4Fe-4S cluster which is probably involved in the
proper positioning of the protein along the DNA strand (By
similarity).
-!- SUBCELLULAR LOCATION: Nucleus.
-!- ALTERNATIVE PRODUCTS:
Event=Alternative splicing; Named isoforms=2;
Name=1;
IsoId=Q8LK56-1; Sequence=Displayed;
Name=2;
IsoId=Q8LK56-2; Sequence=VSP_007455;
Note=No experimental confirmation available;
-!- TISSUE SPECIFICITY: Mainly expressed in immature flower buds, then
decreases as the flower matures. Expressed in the ovule carpels,
but not expressed in pollen stamens. Expressed in developing and
mature ovules (stages 12-14), then strongly decreases after
fertilization.
-!- DEVELOPMENTAL STAGE: Maternally expressed. Expressed primarily in
the central cell of gametophyte before fertilization. Not
expressed in endosperm and embryo after fertilization.
-!- DOMAIN: The DEMETER domain, which is present in proteins of the
subfamily, is related to the J-domain, but lacks some important
conserved residues.
-!- MISCELLANEOUS: Although strongly related to DNA glycosylase
proteins, it differs from these proteins because of its large size
and its unique N-terminal basic domain. The DNA repair function
has not been proved and may not exist.
-!- SIMILARITY: Belongs to the DNA glycosylase family. DEMETER
subfamily.
-!- CAUTION: Ref.2 sequences differ from that shown due to erroneous
gene model prediction.
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Sequence length: 1729
MQSIMDSSAV NATEATEQND GSRQDVLEFD LNKTPQQKPS KRKRKFMPKV VVEGKPKRKP
RKPAELPKVV VEGKPKRKPR KAATQEKVKS KETGSAKKKN LKESATKKPA NVGDMSNKSP
EVTLKSCRKA LNFDLENPGD ARQGDSESEI VQNSSGANSF SEIRDAIGGT NGSFLDSVSQ
IDKTNGLGAM NQPLEVSMGN QPDKLSTGAK LARDQQPDLL TRNQQCQFPV ATQNTQFPME
NQQAWLQMKN QLIGFPFGNQ QPRMTIRNQQ PCLAMGNQQP MYLIGTPRPA LVSGNQQLGG
PQGNKRPIFL NHQTCLPAGN QLYGSPTDMH QLVMSTGGQQ HGLLIKNQQP GSLIRGQQPC
VPLIDQQPAT PKGFTHLNQM VATSMSSPGL RPHSQSQVPT TYLHVESVSR ILNGTTGTCQ
RSRAPAYDSL QQDIHQGNKY ILSHEISNGN GCKKALPQNS SLPTPIMAKL EEARGSKRQY
HRAMGQTEKH DLNLAQQIAQ SQDVERHNSS TCVEYLDAAK KTKIQKVVQE NLHGMPPEVI
EIEDDPTDGA RKGKNTASIS KGASKGNSSP VKKTAEKEKC IVPKTPAKKG RAGRKKSVPP
PAHASEIQLW QPTPPKTPLS RSKPKGKGRK SIQDSGKARG PSGELLCQDS IAEIIYRMQN
LYLGDKEREQ EQNAMVLYKG DGALVPYESK KRKPRPKVDI DDETTRIWNL LMGKGDEKEG
DEEKDKKKEK WWEEERRVFR GRADSFIARM HLVQGDRRFS PWKGSVVDSV IGVFLTQNVS
DHLSSSAFMS LAARFPPKLS SSREDERNVR SVVVEDPEGC ILNLNEIPSW QEKVQHPSDM
EVSGVDSGSK EQLRDCSNSG IERFNFLEKS IQNLEEEVLS SQDSFDPAIF QSCGRVGSCS
CSKSDAEFPT TRCETKTVSG TSQSVQTGSP NLSDEICLQG NERPHLYEGS GDVQKQETTN
VAQKKPDLEK TMNWKDSVCF GQPRNDTNWQ TTPSSSYEQC ATRQPHVLDI EDFGMQGEGL
GYSWMSISPR VDRVKNKNVP RRFFRQGGSV PREFTGQIIP STPHELPGMG LSGSSSAVQE
HQDDTQHNQQ DEMNKASHLQ KTFLDLLNSS EECLTRQSST KQNITDGCLP RDRTAEDVVD
PLSNNSSLQN ILVESNSSNK EQTAVEYKET NATILREMKG TLADGKKPTS QWDSLRKDVE
GNEGRQERNK NNMDSIDYEA IRRASISEIS EAIKERGMNN MLAVRIKDFL ERIVKDHGGI
DLEWLRESPP DKAKDYLLSI RGLGLKSVEC VRLLTLHNLA FPVDTNVGRI AVRMGWVPLQ
PLPESLQLHL LELYPVLESI QKFLWPRLCK LDQRTLYELH YQLITFGKVF CTKSRPNCNA
CPMRGECRHF ASAYASARLA LPAPEERSLT SATIPVPPES FPPVAIPMIE LPLPLEKSLA
SGAPSNRENC EPIIEEPASP GQECTEITES DIEDAYYNED PDEIPTIKLN IEQFGMTLRE
HMERNMELQE GDMSKALVAL HPTTTSIPTP KLKNISRLRT EHQVYELPDS HRLLDGMDKR
EPDDPSPYLL AIWTPGETAN SAQPPEQKCG GKASGKMCFD ETCSECNSLR EANSQTVRGT
LLIPCRTAMR GSFPLNGTYF QVNELFADHE SSLKPIDVPR DWIWDLPRRT VYFGTSVTSI
FRGLSTEQIQ FCFWKGFVCV RGFEQKTRAP RPLMARLHFP ASKLKNNKT