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Protein

MADS-box transcription factor 2

Gene

MADS2

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Probable transcription factor involved in the development of floral organs. B-class protein required for normal development of lodicules (whorl 2).1 Publication

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Activator, Developmental protein

Keywords - Biological processi

Differentiation, Flowering, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
MADS-box transcription factor 2
Alternative name(s):
NMADS1
OsMADS2
RMADS219
Gene namesi
Name:MADS2
Synonyms:MADS
Ordered Locus Names:Os01g0883100, LOC_Os01g66030
ORF Names:B1065E10.30, OsJ_04312Imported
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryza
Proteomesi
  • UP000059680 Componenti: Chromosome 1

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 209209MADS-box transcription factor 2PRO_0000199499Add
BLAST

Proteomic databases

PaxDbiQ40702.

Expressioni

Tissue specificityi

Highly expressed in anthers and carpels. Expressed in pollen, tapetum and stigma.1 Publication

Developmental stagei

Expressed in lodicules and stamens from early to late stage of flower development.2 Publications

Gene expression databases

ExpressionAtlasiQ40702. baseline and differential.
GenevisibleiQ40702. OS.

Interactioni

Protein-protein interaction databases

IntActiQ40702. 1 interaction.
STRINGi39947.LOC_Os01g66030.1.

Structurei

3D structure databases

ProteinModelPortaliQ40702.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 6161MADS-boxPROSITE-ProRule annotationAdd
BLAST
Domaini84 – 17087K-boxPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 K-box domain.PROSITE-ProRule annotation
Contains 1 MADS-box domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0014. Eukaryota.
COG5068. LUCA.
InParanoidiQ40702.
KOiK09264.
OMAiEMAMEEN.

Family and domain databases

InterProiIPR002487. TF_Kbox.
IPR002100. TF_MADSbox.
[Graphical view]
PfamiPF01486. K-box. 1 hit.
PF00319. SRF-TF. 1 hit.
[Graphical view]
PRINTSiPR00404. MADSDOMAIN.
SMARTiSM00432. MADS. 1 hit.
[Graphical view]
SUPFAMiSSF55455. SSF55455. 1 hit.
PROSITEiPS51297. K_BOX. 1 hit.
PS00350. MADS_BOX_1. 1 hit.
PS50066. MADS_BOX_2. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q40702-1) [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
MGRGKIEIKR IENSTNRQVT FSKRRSGILK KAREISVLCD AEVGVVIFSS
60 70 80 90 100
AGKLYDYCSP KTSLSRILEK YQTNSGKILW DEKHKSLSAE IDRIKKENDN
110 120 130 140 150
MQIELRHLKG EDLNSLQPKE LIMIEEALDN GIVNVNDKLM DHWERHVRTD
160 170 180 190 200
KMLEDENKLL AFKLHQQDIA LSGSMRDLEL GYHPDRDFAA QMPITFRVQP

SHPNLQENN
Length:209
Mass (Da):24,158
Last modified:November 1, 1996 - v1
Checksum:iB2AFE95E69EB0E33
GO
Isoform 2 (identifier: Q40702-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     146-164: HVRTDKMLEDENKLLAFKL → IRCWKTRTSCWLSNCTSKI
     165-209: Missing.

Show »
Length:164
Mass (Da):18,986
Checksum:i3B34473E4080B7AA
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti1 – 11M → MM in AAS59830 (Ref. 3) Curated
Sequence conflicti10 – 101R → S in AAK26240 (Ref. 10) Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei146 – 16419HVRTD…LAFKL → IRCWKTRTSCWLSNCTSKI in isoform 2. 1 PublicationVSP_015392Add
BLAST
Alternative sequencei165 – 20945Missing in isoform 2. 1 PublicationVSP_015393Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L37526 mRNA. Translation: AAB52709.1.
AF254557 Genomic DNA. Translation: AAK17066.1.
AY551924 mRNA. Translation: AAS59830.1.
AP003561 Genomic DNA. Translation: BAB90370.1.
AP008207 Genomic DNA. Translation: BAF06926.1.
AP014957 Genomic DNA. Translation: BAS75578.1.
CM000138 Genomic DNA. Translation: EEE55765.1.
AK070894 mRNA. Translation: BAG92196.1.
AF095645 mRNA. Translation: AAK26240.1.
PIRiT03894.
RefSeqiXP_015623988.1. XM_015768502.1. [Q40702-1]
UniGeneiOs.429.

Genome annotation databases

EnsemblPlantsiOS01T0883100-01; OS01T0883100-01; OS01G0883100. [Q40702-1]
GeneIDi4325001.
KEGGiosa:4325001.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L37526 mRNA. Translation: AAB52709.1.
AF254557 Genomic DNA. Translation: AAK17066.1.
AY551924 mRNA. Translation: AAS59830.1.
AP003561 Genomic DNA. Translation: BAB90370.1.
AP008207 Genomic DNA. Translation: BAF06926.1.
AP014957 Genomic DNA. Translation: BAS75578.1.
CM000138 Genomic DNA. Translation: EEE55765.1.
AK070894 mRNA. Translation: BAG92196.1.
AF095645 mRNA. Translation: AAK26240.1.
PIRiT03894.
RefSeqiXP_015623988.1. XM_015768502.1. [Q40702-1]
UniGeneiOs.429.

3D structure databases

ProteinModelPortaliQ40702.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ40702. 1 interaction.
STRINGi39947.LOC_Os01g66030.1.

Proteomic databases

PaxDbiQ40702.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiOS01T0883100-01; OS01T0883100-01; OS01G0883100. [Q40702-1]
GeneIDi4325001.
KEGGiosa:4325001.

Phylogenomic databases

eggNOGiKOG0014. Eukaryota.
COG5068. LUCA.
InParanoidiQ40702.
KOiK09264.
OMAiEMAMEEN.

Gene expression databases

ExpressionAtlasiQ40702. baseline and differential.
GenevisibleiQ40702. OS.

Family and domain databases

InterProiIPR002487. TF_Kbox.
IPR002100. TF_MADSbox.
[Graphical view]
PfamiPF01486. K-box. 1 hit.
PF00319. SRF-TF. 1 hit.
[Graphical view]
PRINTSiPR00404. MADSDOMAIN.
SMARTiSM00432. MADS. 1 hit.
[Graphical view]
SUPFAMiSSF55455. SSF55455. 1 hit.
PROSITEiPS51297. K_BOX. 1 hit.
PS00350. MADS_BOX_1. 1 hit.
PS50066. MADS_BOX_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Characterization of two rice MADS box genes homologous to GLOBOSA."
    Chung Y.-Y., Kim S.-R., Kang H.-G., Noh Y.-S., Park M.C., Finkel D., An G.
    Plant Sci. 109:45-56(1995)
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
    Tissue: Immature flower.
  2. "Molecular cloning of MADS gene in rice."
    Yoon U.-H., Hahn J.-H., Eun M.-Y.
    Submitted (APR-2000) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  3. Yao Q., Peng R., Xiong A.
    Submitted (FEB-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
  4. "The genome sequence and structure of rice chromosome 1."
    Sasaki T., Matsumoto T., Yamamoto K., Sakata K., Baba T., Katayose Y., Wu J., Niimura Y., Cheng Z., Nagamura Y., Antonio B.A., Kanamori H., Hosokawa S., Masukawa M., Arikawa K., Chiden Y., Hayashi M., Okamoto M.
    , Ando T., Aoki H., Arita K., Hamada M., Harada C., Hijishita S., Honda M., Ichikawa Y., Idonuma A., Iijima M., Ikeda M., Ikeno M., Ito S., Ito T., Ito Y., Ito Y., Iwabuchi A., Kamiya K., Karasawa W., Katagiri S., Kikuta A., Kobayashi N., Kono I., Machita K., Maehara T., Mizuno H., Mizubayashi T., Mukai Y., Nagasaki H., Nakashima M., Nakama Y., Nakamichi Y., Nakamura M., Namiki N., Negishi M., Ohta I., Ono N., Saji S., Sakai K., Shibata M., Shimokawa T., Shomura A., Song J., Takazaki Y., Terasawa K., Tsuji K., Waki K., Yamagata H., Yamane H., Yoshiki S., Yoshihara R., Yukawa K., Zhong H., Iwama H., Endo T., Ito H., Hahn J.H., Kim H.-I., Eun M.-Y., Yano M., Jiang J., Gojobori T.
    Nature 420:312-316(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  5. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  6. "The rice annotation project database (RAP-DB): 2008 update."
    The rice annotation project (RAP)
    Nucleic Acids Res. 36:D1028-D1033(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENOME REANNOTATION.
    Strain: cv. Nipponbare.
  7. Cited for: GENOME REANNOTATION.
    Strain: cv. Nipponbare.
  8. "The genomes of Oryza sativa: a history of duplications."
    Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S., Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.
    , Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J., Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X., Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y., Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L., Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H., Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z., Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L., Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F., Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q., Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J., Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M., McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.
    PLoS Biol. 3:266-281(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  9. "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].
    Strain: cv. Nipponbare.
  10. "Cloning and characterization of two cDNAs encoding rice MADS box protein."
    Yuan Z., Qian X., Liu J., Liu J., Qian M., Yang J.
    Prog. Nat. Sci. 10:357-363(2000)
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 8-164 (ISOFORM 2).
  11. "Spatially and temporally regulated expression of rice MADS box genes with similarity to Arabidopsis class A, B and C genes."
    Kyozuka J., Kobayashi T., Morita M., Shimamoto K.
    Plant Cell Physiol. 41:710-718(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: DEVELOPMENTAL STAGE.
  12. "Double-stranded RNA interference of a rice PI/GLO paralog, OsMADS2, uncovers its second-whorl-specific function in floral organ patterning."
    Prasad K., Vijayraghavan U.
    Genetics 165:2301-2305(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.

Entry informationi

Entry nameiMADS2_ORYSJ
AccessioniPrimary (citable) accession number: Q40702
Secondary accession number(s): Q0JH52
, Q6Q9H8, Q7F2L5, Q9AUJ1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 30, 2005
Last sequence update: November 1, 1996
Last modified: June 8, 2016
This is version 96 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.