Q84W55 (IP5P4_ARATH) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Type II inositol-1,4,5-trisphosphate 5-phosphatase FRA3
EC=3.1.3.36

Alternative name(s):
Protein FRAGILE FIBER 3

Gene names

Name:	FRA3
Ordered Locus Names:	At1g65580
ORF Names:	F5I14.11

Organism

Arabidopsis thaliana (Mouse-ear cress)

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length	1101 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Required for secondary wall synthesis and actin organization in fiber cells. Has phosphatase activity toward PtdIns(4,5)P2, PtdIns(3,4,5)P3 and Ins(1,4,5)P3. Has a higher substrate affinity toward PtdIns(4,5)P2. Ref.1
Catalytic activity	1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate + H2O = 1-phosphatidyl-1D-myo-inositol 4-phosphate + phosphate. Ref.1
Cofactor	Magnesium. Ref.1
Tissue specificity	Predominantly expressed in interfascicular fibers and vascular bundles. Expressed in seedlings, stems, roots and flowers. Expressed at lower level in mature leaves. Ref.1
Sequence similarities	Belongs to the inositol-1,4,5-trisphosphate 5-phosphatase type II family. Contains 6 WD repeats.
Biophysicochemical properties	Kinetic parameters: KM=63 µM for PtdIns(4,5)P2 (at pH 7.0 and 22 degrees Celsius) KM=299 µM for PtdIns(3,4,5)P3 (at pH 7.0 and 22 degrees Celsius) KM=1040 µM for PtdIns(1,4,5)P3 (at pH 6.5 and 22 degrees Celsius) Vmax=240 pmol/min/µg enzyme with PtdIns(4,5)P2 as substrate (at pH 7.0 and 22 degrees Celsius) Vmax=365 pmol/min/µg enzyme with PtdIns(3,4,5)P3 as substrate (at pH 7.0 and 22 degrees Celsius) Vmax=504 pmol/min/µg enzyme with PtdIns(1,4,5)P3 as substrate (at pH 6.5 and 22 degrees Celsius) pH dependence: Optimum pH is 6.5 with PtdIns(1,4,5)P3 as substrate, 7.5 with PtdIns(3,4,5)P3 as substrate, and 6.5-8.5 with PtdIns(4,5)P2 as substrate. Temperature dependence: Optimum temperature is 22 degrees Celsius with PtdIns(1,4,5)P3 as substrate, and 22-37 degrees Celsius with PtdIns(4,5)P2 and PtdIns(3,4,5)P3 as substrates.
Sequence caution	The sequence AAB60921.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Domain	Repeat WD repeat
Ligand	Magnesium Metal-binding
Molecular function	Hydrolase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Molecular function	metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1101	1101	Type II inositol-1,4,5-trisphosphate 5-phosphatase FRA3		PRO_0000209726
Regions
	Repeat	121 – 162	42	WD 1
	Repeat	180 – 219	40	WD 2
	Repeat	225 – 263	39	WD 3
	Repeat	403 – 432	30	WD 4
	Repeat	433 – 481	49	WD 5
	Repeat	483 – 519	37	WD 6
	Region	749 – 765	17	Catalytic 1 Potential
	Region	828 – 843	16	Catalytic 2 Potential
	Compositional bias	14 – 52	39	Ser-rich
Experimental info
	Mutagenesis	833	1	A → V in fra3; induces a dramatic reduction in secondary wall thickness and a concomitant decrease in stem strength. Causes elevated levels of PtdIns(4,5)P2 and Ins(1,4,5)P3. Ref.1
	Sequence conflict	583	1	G → R in AAO42229. Ref.5
	Sequence conflict	847	1	L → F in CAB41466. Ref.2

Sequences

	Sequence		Length	Mass (Da)
	Q84W55 [UniParc]. Last modified February 1, 2005. Version 2. Checksum: 256882EB27511965	FASTA	1,101	121,711
	10 20 30 40 50 60 MEDRQNDQND DVFSFFSPSF SAATPSTLFN RSAYSSSSSS GDDESQPSVD DSNKRIDYMI 70 80 90 100 110 120 QFLDRRLSED GNHDGIGDGN GSDSLPEFVG KCGESGIFKV PIRSAVHPNR PPSLDVRPHP 130 140 150 160 170 180 LRETQIGRFL RTMTSTERQL WTGGEDGALR VWEFSELYGS GRGLEVEDTA PYKESLGNEF 190 200 210 220 230 240 GSAAVVCMIG DEGSRVVWSG HRDGRIRCWR LRGDHGIEEA LSWQAHRGPV LSIAISAYGD 250 260 270 280 290 300 IWSGSEGGAL KVWPWDGALG KSLSLKMEER HMAALAVERS YIDPRNMVSA NGFANTLTSD 310 320 330 340 350 360 VTFLVSDHTR ARVWSASPLT FAIWDARTRD LIKVFNIDGQ LENRPENSVY PDFGSEEEGK 370 380 390 400 410 420 MKVTASKKEK AQSSLGFFQR SRNAIMGAAD AVRRAATKGG FCDDSRKTEA IVISVDGMIW 430 440 450 460 470 480 TGSSNGILMR WDGNGNCLQE FAYESSGILC MFTFCSRLWV GYSNGTVQVW DLEGKLLGGW 490 500 510 520 530 540 VAHSGPVIKM AIGAGYLFTL ANHGGIRGWN VTSPGPLDNV LRAELAGKEF LYSRIENLKI 550 560 570 580 590 600 LAGTWNVGEG RASTDSLVSW LGCAATGVEI VVVGLQEVEM GAGVLAMSAA KETVGLEGSP 610 620 630 640 650 660 LGQWWLDMIG KTLDEGSSFV RVGSRQLAGL LICVWVRHDL KPHVGDVDAA AVPCGFGRAI 670 680 690 700 710 720 GNKGAVGVRL RMYDRVLCFV NCHFAAHLEA VNRRNADFDH VYRTMTFSRQ SSSLNAGVAG 730 740 750 760 770 780 ASFGVTMPRG GNALGVNTIE ARPELSEADM VIFLGDFNYR LDDITYDETR DFISQRCFDW 790 800 810 820 830 840 LREKDQLHTE MEAGNVFQGM REAIIRFPPT YKFERHQAGL AGYDSGEKKR IPAWCDRILY 850 860 870 880 890 900 RDNKKHLGAE CSLDCPVVSS ISQYDACMEV TDSDHKPVRC VFSVKIARVD ESVRRQEYGN 910 920 930 940 950 960 IINSNKKIKV LLGELSKVPE TIVSTNNIIL QNQDSTILRI TNKSEKNIAF FKIICEGQSK 970 980 990 1000 1010 1020 IEEDGQAHDH RARGSFGFPQ WLEVSPGTGT IKPNQIAEVS VHLEDFPTVE EFVDGVAQNS 1030 1040 1050 1060 1070 1080 WCEDTRDKEV ILVLVVHGRF STETRKHRIR VRHCPRGGPA KNHFNDGTKT SGQINALHRS 1090 1100 DYHQLSNTLD VVEQLKNLHS P

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"FRAGILE FIBER3, an Arabidopsis gene encoding a type II inositol polyphosphate 5-phosphatase, is required for secondary wall synthesis and actin organization in fiber cells." Zhong R., Burk D.H., Morrison W.H. III, Ye Z.-H. Plant Cell 16:3242-3259(2004) [PubMed: 15539468] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], FUNCTION, ENZYME ACTIVITY, TISSUE SPECIFICITY, COFACTOR, MUTAGENESIS OF ALA-833. Strain: cv. Columbia.
[2]	Xue H., Mueller-Roeber B. Submitted (APR-1998) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[3]	"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. , 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: 11130712] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[4]	The Arabidopsis Information Resource (TAIR) Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: cv. Columbia.
[5]	"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. , 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]. Strain: cv. Columbia.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AY761186 mRNA. Translation: AAV87313.1. AY761190 Genomic DNA. Translation: AAV87317.1. AJ005682 mRNA. Translation: CAB41466.1. AC001229 Genomic DNA. Translation: AAB60921.1. Sequence problems. CP002684 Genomic DNA. Translation: AEE34398.1. BT004211 mRNA. Translation: AAO42229.1.
IPI	IPI00535914.
PIR	G96680.
RefSeq	NP_176736.2. NM_105232.2.
UniGene	At.414.
3D structure databases
ProteinModelPortal	Q84W55.
SMR	Q84W55. Positions 366-515, 531-892.
ModBase	Search...
Protein-protein interaction databases
STRING	Q84W55.
Proteomic databases
PRIDE	Q84W55.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	AT1G65580.1; AT1G65580.1; AT1G65580.
GeneID	842869.
GenomeReviews	Gene locus AT1G65580 in contig CT485782_GR.
KEGG	ath:AT1G65580.
NMPDR	fig|3702.1.peg.5982.
Organism-specific databases
GeneFarm	2952. 267.
TAIR	At1g65580.
Phylogenomic databases
eggNOG	KOG0565.
GeneTree	EPGT00070000028707.
HOGENOM	HBG319261.
InParanoid	Q84W55.
OMA	ILAGTWN.
PhylomeDB	Q84W55.
ProtClustDB	CLSN2683268.
Gene expression databases
ArrayExpress	Q84W55.
Genevestigator	Q84W55.
GermOnline	AT1G65580. Arabidopsis thaliana.
Family and domain databases
InterPro	IPR005135. Endo/exonuclease/phosphatase. IPR000300. IPPc. IPR015943. WD40/YVTN_repeat-like_dom. IPR001680. WD40_repeat. [Graphical view]
Gene3D	G3DSA:2.130.10.10. WD40/YVTN_repeat-like. 3 hits.
Pfam	PF03372. Exo_endo_phos. 1 hit. [Graphical view]
SMART	SM00128. IPPc. 1 hit. SM00320. WD40. 5 hits. [Graphical view]
SUPFAM	SSF56219. Exo_endo_phos. 1 hit.
PROSITE	PS00678. WD_REPEATS_1. 1 hit. PS50082. WD_REPEATS_2. False negative. PS50294. WD_REPEATS_REGION. False negative. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

IP5P4_ARATH

Accession

Primary (citable) accession number: Q84W55
Secondary accession number(s): O04475, Q5MK18, Q9XFT1

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 2005
Last sequence update:	February 1, 2005
Last modified:	November 16, 2011
This is version 74 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program