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Q9ZWM9 (RAV1_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 117. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
AP2/ERF and B3 domain-containing transcription factor RAV1
Alternative name(s):
Ethylene-responsive transcription factor RAV1
Protein RELATED TO ABI3/VP1 1
Gene names
Name:RAV1
Ordered Locus Names:At1g13260
ORF Names:T6J4.2
OrganismArabidopsis thaliana (Mouse-ear cress) [Reference proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length344 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Binds specifically to bipartite recognition sequences composed of two unrelated motifs, 5'-CAACA-3' and 5'-CACCTG-3'. May function as negative regulator of plant growth and development. Ref.1 Ref.8

Subunit structure

Monomer.

Subcellular location

Nucleus Probable.

Tissue specificity

Expressed in all tissues examined: Roots, rosette leaves, cauline leaves, inflorescence stems, flowers and siliques. Highest expression in roots and rosette leaves. Very low expression in flowers. Ref.1

Induction

Down-regulated by brassinosteroid and zeatin. Ref.8

Domain

Contains two distinct DNA-binding domains. One is located in the N-terminal region and binds to the 5'-CAACA-3' motif. The second is located in the C-terminal region and binds to the 5'-CACCTG-3' motif.

Sequence similarities

Belongs to the AP2/ERF transcription factor family. RAV subfamily.

Contains 1 AP2/ERF DNA-binding domain.

Contains 1 TF-B3 DNA-binding domain.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 344344AP2/ERF and B3 domain-containing transcription factor RAV1
PRO_0000112571

Regions

DNA binding61 – 11656AP2/ERF
DNA binding188 – 292105TF-B3

Secondary structure

........................ 344
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Q9ZWM9 [UniParc].

Last modified May 1, 1999. Version 1.
Checksum: 7349B640B3505823

FASTA34438,597
        10         20         30         40         50         60 
MESSSVDEST TSTGSICETP AITPAKKSSV GNLYRMGSGS SVVLDSENGV EAESRKLPSS 

        70         80         90        100        110        120 
KYKGVVPQPN GRWGAQIYEK HQRVWLGTFN EEDEAARAYD VAVHRFRRRD AVTNFKDVKM 

       130        140        150        160        170        180 
DEDEVDFLNS HSKSEIVDML RKHTYNEELE QSKRRRNGNG NMTRTLLTSG LSNDGVSTTG 

       190        200        210        220        230        240 
FRSAEALFEK AVTPSDVGKL NRLVIPKHHA EKHFPLPSSN VSVKGVLLNF EDVNGKVWRF 

       250        260        270        280        290        300 
RYSYWNSSQS YVLTKGWSRF VKEKNLRAGD VVSFSRSNGQ DQQLYIGWKS RSGSDLDAGR 

       310        320        330        340 
VLRLFGVNIS PESSRNDVVG NKRVNDTEML SLVCSKKQRI FHAS 

« Hide

References

« Hide 'large scale' references
[1]"RAV1, a novel DNA-binding protein, binds to bipartite recognition sequence through two distinct DNA-binding domains uniquely found in higher plants."
Kagaya Y., Ohmiya K., Hattori T.
Nucleic Acids Res. 27:470-478(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, TISSUE SPECIFICITY.
Strain: cv. Columbia.
Tissue: Seedling.
[2]"Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana."
Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K. expand/collapse author list , Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D., Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W.
Nature 408:816-820(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Columbia.
[3]The Arabidopsis Information Resource (TAIR)
Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
Cited for: GENOME REANNOTATION.
Strain: cv. Columbia.
[4]"Empirical analysis of transcriptional activity in the Arabidopsis genome."
Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G. expand/collapse author list , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Strain: cv. Columbia.
[5]"The plant B3 superfamily."
Swaminathan K., Peterson K., Jack T.
Trends Plant Sci. 13:647-655(2008) [PubMed] [Europe PMC] [Abstract]
Cited for: GENE FAMILY.
[6]"Solution structure of the B3 DNA binding domain of the Arabidopsis cold-responsive transcription factor RAV1."
Yamasaki K., Kigawa T., Inoue M., Tateno M., Yamasaki T., Yabuki T., Aoki M., Seki E., Matsuda T., Tomo Y., Hayami N., Terada T., Shirouzu M., Osanai T., Tanaka A., Seki M., Shinozaki K., Yokoyama S.
Plant Cell 16:3448-3459(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: STRUCTURE BY NMR OF 182-298.
[7]"Genome-wide analysis of the ERF gene family in Arabidopsis and rice."
Nakano T., Suzuki K., Fujimura T., Shinshi H.
Plant Physiol. 140:411-432(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: GENE FAMILY, NOMENCLATURE.
[8]"Arabidopsis RAV1 is down-regulated by brassinosteroid and may act as a negative regulator during plant development."
Hu Y.X., Wang Y.H., Liu X.F., Li J.Y.
Cell Res. 14:8-15(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, INDUCTION.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AB013886 mRNA. Translation: BAA34250.1.
AC011810 Genomic DNA. Translation: AAG09554.1.
CP002684 Genomic DNA. Translation: AEE28991.1.
AY063855 mRNA. Translation: AAL36211.1.
AY091291 mRNA. Translation: AAM14230.1.
PIRT51329.
RefSeqNP_172784.1. NM_101197.3.
UniGeneAt.20558.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1WIDNMR-A182-298[»]
ProteinModelPortalQ9ZWM9.
SMRQ9ZWM9. Positions 62-115, 182-298.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid23126. 5 interactions.
STRING3702.AT1G13260.1-P.

Proteomic databases

PRIDEQ9ZWM9.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT1G13260.1; AT1G13260.1; AT1G13260.
GeneID837886.
KEGGath:AT1G13260.

Organism-specific databases

TAIRAT1G13260.

Phylogenomic databases

eggNOGNOG266118.
HOGENOMHOG000237484.
InParanoidQ9ZWM9.
KOK09287.
OMAICETPAI.
PhylomeDBQ9ZWM9.

Gene expression databases

GenevestigatorQ9ZWM9.

Family and domain databases

Gene3D2.40.330.10. 1 hit.
3.30.730.10. 1 hit.
InterProIPR001471. AP2/ERF_dom.
IPR003340. B3_DNA-bd.
IPR016177. DNA-bd_dom.
IPR015300. DNA-bd_pseudobarrel.
[Graphical view]
PfamPF00847. AP2. 1 hit.
PF02362. B3. 1 hit.
[Graphical view]
SMARTSM00380. AP2. 1 hit.
SM01019. B3. 1 hit.
[Graphical view]
SUPFAMSSF101936. SSF101936. 1 hit.
SSF54171. SSF54171. 1 hit.
PROSITEPS51032. AP2_ERF. 1 hit.
PS50863. B3. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceQ9ZWM9.

Entry information

Entry nameRAV1_ARATH
AccessionPrimary (citable) accession number: Q9ZWM9
Entry history
Integrated into UniProtKB/Swiss-Prot: November 15, 2002
Last sequence update: May 1, 1999
Last modified: May 14, 2014
This is version 117 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names