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Q9C5X4 (ATX1_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified December 14, 2011. Version 79. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·DocumentsCustomize order
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Histone-lysine N-methyltransferase ATX1
EC=2.1.1.43
Alternative name(s):
Protein SET DOMAIN GROUP 27
Trithorax-homolog protein 1
Short name=TRX-homolog protein 1
Gene names
Name:ATX1
Synonyms:SDG27, SET27, TRX1
Ordered Locus Names:At2g31650
ORF Names:T9H9.17
OrganismArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length1062 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Histone methyltransferase. Methylates 'Lys-4' of histone H3. H3 'Lys-4' methylation represents a specific tag for epigenetic transcriptional activation. Required to maintain the active state of class A (AP1 and AP2), class B (PI and AP3) and class C (AG) floral homeotic genes at early stages of flower development. Regulates floral organ identity and flowering transition. Functions as a receptor for the lipid messenger phosphatidylinositol 5-phosphate (PI5P), which regulates negatively its transcriptional activation activity. Ref.6 Ref.7

Catalytic activity

S-adenosyl-L-methionine + L-lysine-[histone] = S-adenosyl-L-homocysteine + N(6)-methyl-L-lysine-[histone].

Subunit structure

Interacts with PIP5. Ref.7

Subcellular location

Nucleus. Cytoplasm. Note: Shifts from nucleus to cytoplasm as PIP5 levels increase. When in the nucleus, associated with chromatin. When cytoplasmic, mostly localized along the plasma membrane, associated with PIP5. Ref.7

Tissue specificity

Ubiquitous with higher levels in dividing tissues, including inflorescence meristem and flower primordia. Ref.1 Ref.6

Developmental stage

Expression is associated with the initiation of flower organs and ovules. Ref.6

Sequence similarities

Belongs to the histone-lysine methyltransferase family. TRX/MLL subfamily.

Contains 1 FYR C-terminal domain.

Contains 1 FYR N-terminal domain.

Contains 1 PHD-type zinc finger.

Contains 1 phorbol-ester/DAG-type zinc finger.

Contains 1 post-SET domain.

Contains 1 PWWP domain.

Contains 1 SET domain.

Sequence caution

The sequence AAD24842.1 differs from that shown. Reason: Erroneous gene model prediction.

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q9C5X4-1)

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.
Isoform 2 (identifier: Q9C5X4-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-583: Missing.
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 10621062Histone-lysine N-methyltransferase ATX1
PRO_0000233354

Regions

Domain301 – 36565PWWP
Domain441 – 50060FYR N-terminal
Domain504 – 58683FYR C-terminal
Domain897 – 1020124SET
Domain1022 – 103817Post-SET
Zinc finger591 – 64757Phorbol-ester/DAG-type
Zinc finger609 – 66052PHD-type
Region599 – 1062464Interaction with PIP5
Region977 – 9782S-adenosyl-L-methionine binding By similarity

Sites

Metal binding9801Zinc By similarity
Metal binding10261Zinc By similarity
Metal binding10281Zinc By similarity
Metal binding10331Zinc By similarity
Binding site9081S-adenosyl-L-methionine By similarity
Binding site9541S-adenosyl-L-methionine By similarity

Natural variations

Alternative sequence1 – 583583Missing in isoform 2.
VSP_018132

Experimental info

Sequence conflict41F → V in AAK01237. Ref.1
Sequence conflict231R → H in AAK01237. Ref.1
Sequence conflict1941V → I in AAK01237. Ref.1
Sequence conflict3131A → S in AAK01237. Ref.1
Sequence conflict6671R → Q in AAK01237. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified May 2, 2006. Version 2.
Checksum: 8949A2C5F414B726

FASTA1,062119,711
        10         20         30         40         50         60 
MACFSNETQI EIDVHDLVEA PIRYDSIESI YSIPSSALCC VNAVGSHSLM SKKVKAQKLP 

        70         80         90        100        110        120 
MIEQFEIEGS GVSASDDCCR SDDYKLRIQR PEIVRVYYRR RKRPLRECLL DQAVAVKTES 

       130        140        150        160        170        180 
VELDEIDCFE EKKRRKIGNC ELVKSGMESI GLRRCKENNA FSGNKQNGSS RRKGSSSKNQ 

       190        200        210        220        230        240 
DKATLASRSA KKWVRLSYDG VDPTSFIGLQ CKVFWPLDAL WYEGSIVGYS AERKRYTVKY 

       250        260        270        280        290        300 
RDGCDEDIVF DREMIKFLVS REEMELLHLK FCTSNVTVDG RDYDEMVVLA ATLDECQDFE 

       310        320        330        340        350        360 
PGDIVWAKLA GHAMWPAVIV DESIIGERKG LNNKVSGGGS LLVQFFGTHD FARIKVKQAI 

       370        380        390        400        410        420 
SFIKGLLSPS HLKCKQPRFE EGMQEAKMYL KAHRLPERMS QLQKGADSVD SDMANSTEEG 

       430        440        450        460        470        480 
NSGGDLLNDG EVWLRPTEHV DFRHIIGDLL IINLGKVVTD SQFFKDENHI WPEGYTAMRK 

       490        500        510        520        530        540 
FTSLTDHSAS ALYKMEVLRD AETKTHPLFI VTADSGEQFK GPTPSACWNK IYNRIKKVQN 

       550        560        570        580        590        600 
SDSPNILGEE LNGSGTDMFG LSNPEVIKLV QDLSKSRPSS HVSMCKNSLG RHQNQPTGYR 

       610        620        630        640        650        660 
PVRVDWKDLD KCNVCHMDEE YENNLFLQCD KCRMMVHAKC YGELEPCDGA LWLCNLCRPG 

       670        680        690        700        710        720 
APDMPPRCCL CPVVGGAMKP TTDGRWAHLA CAIWIPETCL SDVKKMEPID GVNKVSKDRW 

       730        740        750        760        770        780 
KLMCTICGVS YGACIQCSNN SCRVAYHPLC ARAAGLCVEL ENDMSVEGEE ADQCIRMLSF 

       790        800        810        820        830        840 
CKRHRQTSTA CLGSEDRIKS ATHKTSEYLP PPNPSGCART EPYNCFGRRG RKEPEALAAA 

       850        860        870        880        890        900 
SSKRLFVENQ PYVIGGYSRL EFSTYKSIHG SKVSQMNTPS NILSMAEKYR YMRETYRKRL 

       910        920        930        940        950        960 
AFGKSGIHGF GIFAKLPHRA GDMMIEYTGE LVRPSIADKR EQLIYNSMVG AGTYMFRIDD 

       970        980        990       1000       1010       1020 
ERVIDATRTG SIAHLINHSC VPNCYSRVIT VNGDEHIIIF AKRHIPKWEE LTYDYRFFSI 

      1030       1040       1050       1060 
GERLSCSCGF PGCRGVVNDT EAEEQHAKIC VPRCDLIDWT AE

« Hide

Isoform 2 [UniParc].

Checksum: 8D11676D853E8509
Show »

FASTA47954,058

References

« Hide 'large scale' references
[1]"Two Arabidopsis homologs of the animal trithorax genes: a new structural domain is a signature feature of the trithorax gene family."
Alvarez-Venegas R., Avramova Z.
Gene 271:215-221(2001) [PubMed: 11418242] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), TISSUE SPECIFICITY.
Strain: cv. Wassilewskija.
[2]"Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana."
Lin X., Kaul S., Rounsley S.D., Shea T.P., Benito M.-I., Town C.D., Fujii C.Y., Mason T.M., Bowman C.L., Barnstead M.E., Feldblyum T.V., Buell C.R., Ketchum K.A., Lee J.J., Ronning C.M., Koo H.L., Moffat K.S., Cronin L.A. expand/collapse author list , Shen M., Pai G., Van Aken S., Umayam L., Tallon L.J., Gill J.E., Adams M.D., Carrera A.J., Creasy T.H., Goodman H.M., Somerville C.R., Copenhaver G.P., Preuss D., Nierman W.C., White O., Eisen J.A., Salzberg S.L., Fraser C.M., Venter J.C.
Nature 402:761-768(1999) [PubMed: 10617197] [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: 14593172] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
Strain: cv. Columbia.
[5]"The Arabidopsis thaliana genome contains at least 29 active genes encoding SET domain proteins that can be assigned to four evolutionarily conserved classes."
Baumbusch L.O., Thorstensen T., Krauss V., Fischer A., Naumann K., Assalkhou R., Schulz I., Reuter G., Aalen R.B.
Nucleic Acids Res. 29:4319-4333(2001) [PubMed: 11691919] [Abstract]
Cited for: NOMENCLATURE.
[6]"ATX-1, an Arabidopsis homolog of trithorax, activates flower homeotic genes."
Alvarez-Venegas R., Pien S., Sadder M., Witmer X., Grossniklaus U., Avramova Z.
Curr. Biol. 13:627-637(2003) [PubMed: 12699618] [Abstract]
Cited for: FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
[7]"The Arabidopsis homolog of trithorax, ATX1, binds phosphatidylinositol 5-phosphate, and the two regulate a common set of target genes."
Alvarez-Vnegas R., Sadder M., Hlavacka A., Baluska F., Xia Y., Lu G., Firsov A., Sarath G., Moriyama H., Dubrovsky J.G., Avramova Z.
Proc. Natl. Acad. Sci. U.S.A. 103:6049-6054(2006) [PubMed: 16585509] [Abstract]
Cited for: FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH PIP5.
+Additional computationally mapped references.

Web resources

PlantsUBQ

A functional genomics database for the ubiquitin/26S proteasome proteolytic pathway in plants

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		AF329273 mRNA. Translation: AAK01237.1.
AC007071 Genomic DNA. Translation: AAD24842.1. Sequence problems.
CP002685 Genomic DNA. Translation: AEC08569.1.
BT002941 mRNA. Translation: AAO22754.1.
IPIIPI00533422.
IPI00759265.
PIRD84723.
RefSeqNP_850170.1. NM_179839.2.
UniGeneAt.14356.

3D structure databases

ProteinModelPortalQ9C5X4.
SMRQ9C5X4. Positions 292-390, 440-583, 610-660, 883-1038.
ModBaseSearch...

Protein-protein interaction databases

STRINGQ9C5X4.

Proteomic databases

PRIDEQ9C5X4.
ProMEXQ9C5X4.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT2G31650.1; AT2G31650.1; AT2G31650.
GeneID817721.
GenomeReviewsGene locus AT2G31650 in contig CT485783_GR.
KEGGath:AT2G31650.
NMPDRfig|3702.1.peg.10223.

Organism-specific databases

TAIRAt2g31650.

Phylogenomic databases

eggNOGKOG1080.
HOGENOMHBG319257.
InParanoidQ9C5X4.
OMADYDEMVV.
PhylomeDBQ9C5X4.
ProtClustDBCLSN2679953.

Gene expression databases

GenevestigatorQ9C5X4.
GermOnlineAT2G31650. Arabidopsis thaliana.

Family and domain databases

InterProIPR003889. FYrich_C.
IPR018516. FYrich_C_subgr.
IPR003888. FYrich_N.
IPR018518. FYrich_N_subgr.
IPR019023. Lamin-B_rcpt_of_tudor.
IPR003616. Post-SET_dom.
IPR002219. Prot_Kinase_C-like_PE/DAG-bd.
IPR000313. PWWP.
IPR001214. SET_dom.
IPR019786. Zinc_finger_PHD-type_CS.
IPR011011. Znf_FYVE_PHD.
IPR001965. Znf_PHD.
IPR019787. Znf_PHD-finger.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
Gene3DG3DSA:3.30.40.10. Znf_RING/FYVE/PHD. 1 hit.
PfamPF05965. FYRC. 1 hit.
PF05964. FYRN. 1 hit.
PF09465. LBR_tudor. 1 hit.
PF00855. PWWP. 1 hit.
PF00856. SET. 1 hit.
[Graphical view]
SMARTSM00109. C1. 1 hit.
SM00542. FYRC. 1 hit.
SM00541. FYRN. 1 hit.
SM00249. PHD. 2 hits.
SM00508. PostSET. 1 hit.
SM00317. SET. 1 hit.
[Graphical view]
SUPFAMSSF57903. FYVE_PHD_ZnF. 1 hit.
PROSITEPS51543. FYRC. 1 hit.
PS51542. FYRN. 1 hit.
PS50868. POST_SET. 1 hit.
PS50812. PWWP. 1 hit.
PS50280. SET. 1 hit.
PS00479. ZF_DAG_PE_1. False negative.
PS50081. ZF_DAG_PE_2. 1 hit.
PS01359. ZF_PHD_1. 1 hit.
PS50016. ZF_PHD_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameATX1_ARATH
AccessionPrimary (citable) accession number: Q9C5X4
Secondary accession number(s): Q84WP4, Q9SIP3
Entry history
Integrated into UniProtKB/Swiss-Prot: May 2, 2006
Last sequence update: May 2, 2006
Last modified: December 14, 2011
This is version 79 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names

SIMILARITY comments

Index of protein domains and families

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