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B1Q3J6

- DNM1B_ORYSJ

UniProt

B1Q3J6 - DNM1B_ORYSJ

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Protein
DNA (cytosine-5)-methyltransferase 1B
Gene
MET1B, MET1-2, Os07g0182900, LOC_Os07g08500, OJ1506_G02.17
Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at transcript leveli

Functioni

Probably methylates CpG residues and maintains DNA methylation.

Catalytic activityi

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei1198 – 11981 By similarity

GO - Molecular functioni

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

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
Complete GO annotation...

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
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 15291529DNA (cytosine-5)-methyltransferase 1B
PRO_0000381940Add
BLAST

Expressioni

Tissue specificityi

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

Structurei

3D structure databases

ProteinModelPortaliB1Q3J6.

Family & Domainsi

Domains and Repeats

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

Sequence similaritiesi

Contains 2 BAH domains.

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.

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 4343Missing in isoform 3.
VSP_037851Add
BLAST
Alternative sequencei1 – 3232Missing in isoform 2.
VSP_037852Add
BLAST
Alternative sequencei33 – 4311LDEGPLDATKE → MLSCGVFRKEK in isoform 2.
VSP_037853Add
BLAST

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti923 – 9231D → E in DAA01513. 1 Publication

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...

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

« Hide 'large scale' publications
  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: June 11, 2014
This is version 29 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

Similar proteinsi