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B1Q3J6

- DNM1B_ORYSJ

UniProt

B1Q3J6 - DNM1B_ORYSJ

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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

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
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-KW
Complete GO annotation...

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

Gene expression databases

ExpressionAtlasiB1Q3J6. baseline and differential.

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.
InParanoidiB1Q3J6.

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

        10         20         30         40         50
MVKSPCSPVT TGKKRCRAKP QKKDEDTTDK GKLDEGPLDA TKEMNGVGKG
60 70 80 90 100
DSRAACKRPR RAAACSDFKE KSVRLSDKSS VVATNGNKME EEEMDAVKLT
110 120 130 140 150
KLGPEVQRPC RKLIDFILHD ADGKLQPFEM SEIDDFFITA LIMPMDDDLE
160 170 180 190 200
KDRQKGVRCE GFGRIEDWAI SGYDEGTAVV WVSTEVADYE CVKPAGNYKS
210 220 230 240 250
YYDHFYEKAQ VCVEVYRKLA RSVGGNPNLG LEELLASVVR SINAIKGYSG
260 270 280 290 300
TLSKDFVISN GEFVYNQLIG LDETANTDDE KFATLPVLLA LRDGCKSRVE
310 320 330 340 350
VSKLQPNISN GSLKINDAEC KEVSEDDDEK LARLLQQEEE WKMMKQRGKR
360 370 380 390 400
GTTSQKNVYI KISEAEIAND YPLPAYYKPS SQEMDEYIFD SEDSFYSDVP
410 420 430 440 450
VRILNNWALY NADSRLIPLE LIPMKAGAEN DIVVFGSGFM REDDGSCCST
460 470 480 490 500
AESAKLSSSS SSNHQDAGVS IYLSPIKEWV IEFGGSMICI TIRTDVAWYK
510 520 530 540 550
LRQPTKQYAP WCEPVLKTAR LSVSIITLLK EQSRASKLSF ADVIKKVAEF
560 570 580 590 600
DKGSPAFVSS NVALVERYIV VHGQIILQQF SDFPDETIRR SAFATGLLMK
610 620 630 640 650
MEQRRHTKLV MKKKVQVMRG ENLNPSATMG PASRRKVMRA TTTRLINRIW
660 670 680 690 700
SDYYTHHFPE DSKDADVNEA KEIDDELEEN EDEDAEEEAQ IEEENVSKTP
710 720 730 740 750
PSTRSRKLVS QTCKEIRWEG EAIGKTPSGE ALYKCAYVRE LRINLGRTVA
760 770 780 790 800
LEDDSGELVM CFVEYMFQKL NGAKMVHGRL LQKGSETVLG NAANERDLFL
810 820 830 840 850
TNECLEFELE DIKELMSVNL QSLPWGHKYR KENAEADRIE RAKAEDRKKK
860 870 880 890 900
GLPMEYLCKS LYWPEKGAFF SLPHDKLGLG NGFCSSCQQK EPDCDELQIL
910 920 930 940 950
SKNSFIYRNI TYNVNDYLYI RPDFFSQEED RATFKGGRNV GLKPYVVCHL
960 970 980 990 1000
LDVHEPAGSR KIHPASTKIS VRRFYRPDDI SSAKAYVSDI REVYYSENIV
1010 1020 1030 1040 1050
KVPVDMIEGK CEVKKKIDIS NSDVPVMVEH EFFCEHFYDP ATGALKQLPP
1060 1070 1080 1090 1100
NVKLMSVQQK ATGALKKNKG KQICESDQVD SDKCTKVSKE NRLATLDIFA
1110 1120 1130 1140 1150
GCGGLSEGLQ QAGVSFTKWA IEYEEPAGEA FTKNHPEAAV FVDNCNVILK
1160 1170 1180 1190 1200
AIMDKCGDAD DCISTSEAAE QAAKFSQDNI MNLPVPGEVE FINGGPPCQG
1210 1220 1230 1240 1250
FSGMNRFNQS PWSKVQCEMI LAFLSFAEYF RPRFFLLENV RNFVSFNKGQ
1260 1270 1280 1290 1300
TFRLTVASLL EMGYQVRFGI LEAGTFGVAQ SRKRAFIWAA APGETLPDWP
1310 1320 1330 1340 1350
EPMHVFASPE LKINLPDGKY YAAAKSTAGG APFRAITVRD TIGDLPKVEN
1360 1370 1380 1390 1400
GASKLLLEYG GEPISWFQKK IRGNTIALND HISKEMNELN LIRCQRIPKR
1410 1420 1430 1440 1450
PGCDWHDLPD EKVKLSSGQL VDLIPWCLPN TAKRHNQWKG LYGRLDWEGN
1460 1470 1480 1490 1500
FPTSVTDPQP MGKVGMCFHP DQDRIITVRE CARSQGFPDN YQFAGNIQSK
1510 1520
HRQIGNAVPP PLAFALGRKL KEAVDAKRQ
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.
InParanoidi B1Q3J6.

Gene expression databases

ExpressionAtlasi B1Q3J6. baseline and differential.

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: October 29, 2014
This is version 31 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