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B1Q3J6

- DNM1B_ORYSJ

UniProt

B1Q3J6 - DNM1B_ORYSJ

Protein

DNA (cytosine-5)-methyltransferase 1B

Gene

MET1B

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 30 (01 Oct 2014)
      Sequence version 1 (20 May 2008)
      Previous versions | rss
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    Functioni

    Probably methylates CpG residues and maintains DNA methylation.

    Catalytic activityi

    S-adenosyl-L-methionine + DNA = S-adenosyl-L-homocysteine + DNA containing 5-methylcytosine.PROSITE-ProRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei1198 – 11981PROSITE-ProRule annotation

    GO - Molecular functioni

    1. chromatin binding Source: InterPro
    2. DNA (cytosine-5-)-methyltransferase activity Source: UniProtKB-EC
    3. DNA binding Source: UniProtKB-KW

    GO - Biological processi

    1. DNA mediated transformation Source: EnsemblPlants/Gramene
    2. DNA methylation on cytosine within a CG sequence Source: EnsemblPlants/Gramene
    3. maintenance of DNA methylation Source: EnsemblPlants/Gramene
    4. negative regulation of flower development Source: EnsemblPlants/Gramene
    5. regulation of gene expression by genetic imprinting Source: EnsemblPlants/Gramene
    6. zygote asymmetric cytokinesis in embryo sac Source: EnsemblPlants/Gramene

    Keywords - Molecular functioni

    Methyltransferase, Transferase

    Keywords - Ligandi

    DNA-binding, S-adenosyl-L-methionine

    Protein family/group databases

    REBASEi7659. M.OsaDnmt1B.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA (cytosine-5)-methyltransferase 1B (EC:2.1.1.37)
    Short name:
    OsMET1b
    Alternative name(s):
    DNA methyltransferase 1-2
    Short name:
    OsMET1-2
    Gene namesi
    Name:MET1B
    Synonyms:MET1-2
    Ordered Locus Names:Os07g0182900, LOC_Os07g08500
    ORF Names:OJ1506_G02.17
    OrganismiOryza sativa subsp. japonica (Rice)
    Taxonomic identifieri39947 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBEP cladeEhrhartoideaeOryzeaeOryza
    ProteomesiUP000000763: Chromosome 7

    Organism-specific databases

    GrameneiB1Q3J6.

    Subcellular locationi

    Nucleus By similarity

    GO - Cellular componenti

    1. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 15291529DNA (cytosine-5)-methyltransferase 1BPRO_0000381940Add
    BLAST

    Expressioni

    Tissue specificityi

    Expressed in roots, panicles, anthers, pistils, endosperm and imbibed embryos.2 Publications

    Structurei

    3D structure databases

    ProteinModelPortaliB1Q3J6.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini741 – 873133BAH 1PROSITE-ProRule annotationAdd
    BLAST
    Domaini910 – 1049140BAH 2PROSITE-ProRule annotationAdd
    BLAST
    Domaini1093 – 1527435SAM-dependent MTase C5-typePROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.PROSITE-ProRule annotation
    Contains 2 BAH domains.PROSITE-ProRule annotation
    Contains 1 SAM-dependent MTase C5-type domain.PROSITE-ProRule annotation

    Keywords - Domaini

    Repeat

    Phylogenomic databases

    eggNOGiCOG0270.

    Family and domain databases

    Gene3Di3.40.50.150. 2 hits.
    InterProiIPR001025. BAH_dom.
    IPR018117. C5_DNA_meth_AS.
    IPR001525. C5_MeTfrase.
    IPR022702. Cytosine_MeTrfase1_RFD.
    IPR017198. DNA_C5-MeTrfase_1_euk.
    IPR029063. SAM-dependent_MTases-like.
    [Graphical view]
    PANTHERiPTHR10629. PTHR10629. 1 hit.
    PfamiPF01426. BAH. 2 hits.
    PF00145. DNA_methylase. 1 hit.
    PF12047. DNMT1-RFD. 2 hits.
    [Graphical view]
    PIRSFiPIRSF037404. DNMT1. 1 hit.
    PRINTSiPR00105. C5METTRFRASE.
    SMARTiSM00439. BAH. 2 hits.
    [Graphical view]
    SUPFAMiSSF53335. SSF53335. 3 hits.
    TIGRFAMsiTIGR00675. dcm. 1 hit.
    PROSITEiPS51038. BAH. 2 hits.
    PS00094. C5_MTASE_1. 1 hit.
    PS00095. C5_MTASE_2. 1 hit.
    PS51679. SAM_MT_C5. 1 hit.
    [Graphical view]

    Sequences (3)i

    Sequence statusi: Complete.

    This entry describes 3 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: B1Q3J6-1) [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

    MVKSPCSPVT TGKKRCRAKP QKKDEDTTDK GKLDEGPLDA TKEMNGVGKG     50
    DSRAACKRPR RAAACSDFKE KSVRLSDKSS VVATNGNKME EEEMDAVKLT 100
    KLGPEVQRPC RKLIDFILHD ADGKLQPFEM SEIDDFFITA LIMPMDDDLE 150
    KDRQKGVRCE GFGRIEDWAI SGYDEGTAVV WVSTEVADYE CVKPAGNYKS 200
    YYDHFYEKAQ VCVEVYRKLA RSVGGNPNLG LEELLASVVR SINAIKGYSG 250
    TLSKDFVISN GEFVYNQLIG LDETANTDDE KFATLPVLLA LRDGCKSRVE 300
    VSKLQPNISN GSLKINDAEC KEVSEDDDEK LARLLQQEEE WKMMKQRGKR 350
    GTTSQKNVYI KISEAEIAND YPLPAYYKPS SQEMDEYIFD SEDSFYSDVP 400
    VRILNNWALY NADSRLIPLE LIPMKAGAEN DIVVFGSGFM REDDGSCCST 450
    AESAKLSSSS SSNHQDAGVS IYLSPIKEWV IEFGGSMICI TIRTDVAWYK 500
    LRQPTKQYAP WCEPVLKTAR LSVSIITLLK EQSRASKLSF ADVIKKVAEF 550
    DKGSPAFVSS NVALVERYIV VHGQIILQQF SDFPDETIRR SAFATGLLMK 600
    MEQRRHTKLV MKKKVQVMRG ENLNPSATMG PASRRKVMRA TTTRLINRIW 650
    SDYYTHHFPE DSKDADVNEA KEIDDELEEN EDEDAEEEAQ IEEENVSKTP 700
    PSTRSRKLVS QTCKEIRWEG EAIGKTPSGE ALYKCAYVRE LRINLGRTVA 750
    LEDDSGELVM CFVEYMFQKL NGAKMVHGRL LQKGSETVLG NAANERDLFL 800
    TNECLEFELE DIKELMSVNL QSLPWGHKYR KENAEADRIE RAKAEDRKKK 850
    GLPMEYLCKS LYWPEKGAFF SLPHDKLGLG NGFCSSCQQK EPDCDELQIL 900
    SKNSFIYRNI TYNVNDYLYI RPDFFSQEED RATFKGGRNV GLKPYVVCHL 950
    LDVHEPAGSR KIHPASTKIS VRRFYRPDDI SSAKAYVSDI REVYYSENIV 1000
    KVPVDMIEGK CEVKKKIDIS NSDVPVMVEH EFFCEHFYDP ATGALKQLPP 1050
    NVKLMSVQQK ATGALKKNKG KQICESDQVD SDKCTKVSKE NRLATLDIFA 1100
    GCGGLSEGLQ QAGVSFTKWA IEYEEPAGEA FTKNHPEAAV FVDNCNVILK 1150
    AIMDKCGDAD DCISTSEAAE QAAKFSQDNI MNLPVPGEVE FINGGPPCQG 1200
    FSGMNRFNQS PWSKVQCEMI LAFLSFAEYF RPRFFLLENV RNFVSFNKGQ 1250
    TFRLTVASLL EMGYQVRFGI LEAGTFGVAQ SRKRAFIWAA APGETLPDWP 1300
    EPMHVFASPE LKINLPDGKY YAAAKSTAGG APFRAITVRD TIGDLPKVEN 1350
    GASKLLLEYG GEPISWFQKK IRGNTIALND HISKEMNELN LIRCQRIPKR 1400
    PGCDWHDLPD EKVKLSSGQL VDLIPWCLPN TAKRHNQWKG LYGRLDWEGN 1450
    FPTSVTDPQP MGKVGMCFHP DQDRIITVRE CARSQGFPDN YQFAGNIQSK 1500
    HRQIGNAVPP PLAFALGRKL KEAVDAKRQ 1529
    Length:1,529
    Mass (Da):171,908
    Last modified:May 20, 2008 - v1
    Checksum:iF7471690926042C6
    GO
    Isoform 2 (identifier: B1Q3J6-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         1-32: Missing.
         33-43: LDEGPLDATKE → MLSCGVFRKEK

    Note: No experimental confirmation available.

    Show »
    Length:1,497
    Mass (Da):168,488
    Checksum:iAB600B781CBF1610
    GO
    Isoform 3 (identifier: B1Q3J6-3) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         1-43: Missing.

    Show »
    Length:1,486
    Mass (Da):167,208
    Checksum:i1245DCB4B74CEB3B
    GO

    Sequence cautioni

    The sequence AK111461 differs from that shown. Reason: Frameshift at position 1320.
    The sequence BAD30340.1 differs from that shown. Reason: Erroneous gene model prediction.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti923 – 9231D → E in DAA01513. (PubMed:18281124)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei1 – 4343Missing in isoform 3. CuratedVSP_037851Add
    BLAST
    Alternative sequencei1 – 3232Missing in isoform 2. CuratedVSP_037852Add
    BLAST
    Alternative sequencei33 – 4311LDEGPLDATKE → MLSCGVFRKEK in isoform 2. CuratedVSP_037853Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB362511 Genomic DNA. Translation: BAG15929.1.
    AB362511 Genomic DNA. Translation: BAG15930.1.
    AP003835 Genomic DNA. Translation: BAD30340.1. Sequence problems.
    AK111461 mRNA. No translation available.
    BK001405 Genomic DNA. Translation: DAA01513.1.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB362511 Genomic DNA. Translation: BAG15929.1 .
    AB362511 Genomic DNA. Translation: BAG15930.1 .
    AP003835 Genomic DNA. Translation: BAD30340.1 . Sequence problems.
    AK111461 mRNA. No translation available.
    BK001405 Genomic DNA. Translation: DAA01513.1 .

    3D structure databases

    ProteinModelPortali B1Q3J6.
    ModBasei Search...
    MobiDBi Search...

    Protein family/group databases

    REBASEi 7659. M.OsaDnmt1B.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Organism-specific databases

    Gramenei B1Q3J6.

    Phylogenomic databases

    eggNOGi COG0270.

    Family and domain databases

    Gene3Di 3.40.50.150. 2 hits.
    InterProi IPR001025. BAH_dom.
    IPR018117. C5_DNA_meth_AS.
    IPR001525. C5_MeTfrase.
    IPR022702. Cytosine_MeTrfase1_RFD.
    IPR017198. DNA_C5-MeTrfase_1_euk.
    IPR029063. SAM-dependent_MTases-like.
    [Graphical view ]
    PANTHERi PTHR10629. PTHR10629. 1 hit.
    Pfami PF01426. BAH. 2 hits.
    PF00145. DNA_methylase. 1 hit.
    PF12047. DNMT1-RFD. 2 hits.
    [Graphical view ]
    PIRSFi PIRSF037404. DNMT1. 1 hit.
    PRINTSi PR00105. C5METTRFRASE.
    SMARTi SM00439. BAH. 2 hits.
    [Graphical view ]
    SUPFAMi SSF53335. SSF53335. 3 hits.
    TIGRFAMsi TIGR00675. dcm. 1 hit.
    PROSITEi PS51038. BAH. 2 hits.
    PS00094. C5_MTASE_1. 1 hit.
    PS00095. C5_MTASE_2. 1 hit.
    PS51679. SAM_MT_C5. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Alternative splicing of the rice OsMET1 genes encoding maintenance DNA methyltransferase."
      Yamauchi T., Moritoh S., Johzuka-Hisatomi Y., Ono A., Terada R., Nakamura I., Iida S.
      J. Plant Physiol. 165:1774-1782(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], TISSUE SPECIFICITY, ALTERNATIVE SPLICING.
      Strain: cv. Nipponbare.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: cv. Nipponbare.
    3. "Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice."
      The rice full-length cDNA consortium
      Science 301:376-379(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1085-1529.
      Strain: cv. Nipponbare.
    4. "Characterization of two rice DNA methyltransferase genes and RNAi-mediated reactivation of a silenced transgene in rice callus."
      Teerawanichpan P., Chandrasekharan M.B., Jiang Y., Narangajavana J., Hall T.C.
      Planta 218:337-349(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION, TISSUE SPECIFICITY.

    Entry informationi

    Entry nameiDNM1B_ORYSJ
    AccessioniPrimary (citable) accession number: B1Q3J6
    Secondary accession number(s): B1Q3J7, Q69W70, Q7PC77
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 1, 2009
    Last sequence update: May 20, 2008
    Last modified: October 1, 2014
    This is version 30 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. Oryza sativa (rice)
      Index of Oryza sativa entries and their corresponding gene designations
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3