CAF1P_ARATH
ID CAF1P_ARATH Reviewed; 701 AA.
AC Q9SL79; Q94AQ2;
DT 03-APR-2007, integrated into UniProtKB/Swiss-Prot.
DT 01-JUN-2002, sequence version 2.
DT 03-AUG-2022, entry version 112.
DE RecName: Full=CRS2-associated factor 1, chloroplastic;
DE AltName: Full=Chloroplastic group IIA intron splicing facilitator CRS2-associated factor 1;
DE Flags: Precursor;
GN OrderedLocusNames=At2g20020; ORFNames=T2G17.18;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10617197; DOI=10.1038/45471;
RA Lin X., Kaul S., Rounsley S.D., Shea T.P., Benito M.-I., Town C.D.,
RA Fujii C.Y., Mason T.M., Bowman C.L., Barnstead M.E., Feldblyum T.V.,
RA Buell C.R., Ketchum K.A., Lee J.J., Ronning C.M., Koo H.L., Moffat K.S.,
RA Cronin L.A., Shen M., Pai G., Van Aken S., Umayam L., Tallon L.J.,
RA Gill J.E., Adams M.D., Carrera A.J., Creasy T.H., Goodman H.M.,
RA Somerville C.R., Copenhaver G.P., Preuss D., Nierman W.C., White O.,
RA Eisen J.A., Salzberg S.L., Fraser C.M., Venter J.C.;
RT "Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana.";
RL Nature 402:761-768(1999).
RN [2]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RX PubMed=14593172; DOI=10.1126/science.1088305;
RA Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M.,
RA Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G.,
RA Liu S.X., Lam B., Sakano H., Wu T., Yu G., Miranda M., Quach H.L.,
RA Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C.,
RA Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J.,
RA Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A.,
RA Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C.,
RA Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X.,
RA Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M.,
RA Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K.,
RA Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A.,
RA Ecker J.R.;
RT "Empirical analysis of transcriptional activity in the Arabidopsis
RT genome.";
RL Science 302:842-846(2003).
RN [4]
RP FUNCTION, AND DISRUPTION PHENOTYPE.
RX PubMed=17071648; DOI=10.1104/pp.106.088096;
RA Asakura Y., Barkan A.;
RT "Arabidopsis orthologs of maize chloroplast splicing factors promote
RT splicing of orthologous and species-specific group II introns.";
RL Plant Physiol. 142:1656-1663(2006).
CC -!- FUNCTION: Required for the splicing of group IIB introns in
CC chloroplasts. Forms splicing particles with CRS2. Interacts with RNA
CC and confers intron specificity of the splicing particles.
CC {ECO:0000269|PubMed:17071648}.
CC -!- SUBUNIT: Interacts with CRS2 and RNA. Part of large ribonucleo-protein
CC complexes that include group IIB introns, CRS2 and CAF1 (By
CC similarity). {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast stroma {ECO:0000305}.
CC -!- DISRUPTION PHENOTYPE: Plants are albinos.
CC {ECO:0000269|PubMed:17071648}.
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DR EMBL; AC006081; AAD24394.2; -; Genomic_DNA.
DR EMBL; CP002685; AEC06956.1; -; Genomic_DNA.
DR EMBL; AY045882; AAK76556.1; -; mRNA.
DR EMBL; BT004337; AAO42331.1; -; mRNA.
DR PIR; A84584; A84584.
DR RefSeq; NP_565462.1; NM_127560.4.
DR AlphaFoldDB; Q9SL79; -.
DR SMR; Q9SL79; -.
DR STRING; 3702.AT2G20020.1; -.
DR PaxDb; Q9SL79; -.
DR PRIDE; Q9SL79; -.
DR ProteomicsDB; 239174; -.
DR EnsemblPlants; AT2G20020.1; AT2G20020.1; AT2G20020.
DR GeneID; 816521; -.
DR Gramene; AT2G20020.1; AT2G20020.1; AT2G20020.
DR KEGG; ath:AT2G20020; -.
DR Araport; AT2G20020; -.
DR TAIR; locus:2061604; AT2G20020.
DR eggNOG; ENOG502QQC4; Eukaryota.
DR HOGENOM; CLU_012688_0_0_1; -.
DR InParanoid; Q9SL79; -.
DR OMA; FTHNMLD; -.
DR OrthoDB; 408261at2759; -.
DR PhylomeDB; Q9SL79; -.
DR PRO; PR:Q9SL79; -.
DR Proteomes; UP000006548; Chromosome 2.
DR ExpressionAtlas; Q9SL79; baseline and differential.
DR Genevisible; Q9SL79; AT.
DR GO; GO:0009570; C:chloroplast stroma; IEA:UniProtKB-SubCell.
DR GO; GO:0003729; F:mRNA binding; IDA:TAIR.
DR GO; GO:0000373; P:Group II intron splicing; IDA:TAIR.
DR GO; GO:0006397; P:mRNA processing; IEA:UniProtKB-KW.
DR Gene3D; 3.30.110.60; -; 2.
DR InterPro; IPR044599; CAF1P_plant.
DR InterPro; IPR001890; RNA-binding_CRM.
DR InterPro; IPR035920; YhbY-like_sf.
DR PANTHER; PTHR46247; PTHR46247; 2.
DR Pfam; PF01985; CRS1_YhbY; 2.
DR SMART; SM01103; CRS1_YhbY; 2.
DR SUPFAM; SSF75471; SSF75471; 2.
DR PROSITE; PS51295; CRM; 2.
PE 2: Evidence at transcript level;
KW Chloroplast; mRNA processing; mRNA splicing; Plastid; Reference proteome;
KW Repeat; Ribonucleoprotein; RNA-binding; Transit peptide.
FT TRANSIT 1..37
FT /note="Chloroplast"
FT /evidence="ECO:0000255"
FT CHAIN 38..701
FT /note="CRS2-associated factor 1, chloroplastic"
FT /id="PRO_0000283614"
FT DOMAIN 241..337
FT /note="CRM 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00626"
FT DOMAIN 359..455
FT /note="CRM 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00626"
FT REGION 68..136
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 190..221
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 471..532
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 564..586
FT /note="CRS2 binding"
FT /evidence="ECO:0000250"
FT COMPBIAS 476..496
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 504..532
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 701 AA; 79055 MW; 710A105AF161667D CRC64;
MSLKLNTPFP IFAPSLFPNH NPRAPSEIRF SRWGNANAER FEQRRRSQEE LEAEIRRDRR
FDAATKIVHT HDSEAAAAEP KTSPFRSRGT PSLPSARSIP GRRSKYSKPD SGPNRPKNKP
RVPDSPPQLD AKPEVKLSED GLTYVINGAP FEFKYSYTET PKVKPLKLRE PAYAPFGPTT
MGRPWTGRAP LPQSQKTPRE FDSFRLPPVG KKGLKPVQKP GPFRPGVGPR YVYSKEEILG
EPLTKEEVRE LVTSCLKTTR QLNMGRDGLT HNMLNNIHDL WKRRRVCKIK CKGVCTVDMD
NVCEQLEEKI GGKVIYRRGG VLFLFRGRNY NHRTRPRFPL MLWKPVAPVY PRLIQQVPEG
LTRQEATNMR RKGRELMPIC KLGKNGVYCD LVKNVKEAFE VCELVRIDCQ GMKGSDFRKI
GAKLKDLVPC VLVSFENEQI LIWRGREWKS SLTTPDKKGD ILEDIEVDTA LPEDDEPSVS
PNQSQTMTQN PPLDSMELQN DPDGHDLSPS TVDSSEMEGT INSLQSWSTK DVTEPTVDSF
LRDLEEPEDE PETSEEISKQ SIERVLILMK QAVESGTALV LDAADLDADT VFSKAVAFSS
VASPGPVFQH GLRKQPTVKK QESQEFGYGD LEAKSSNVVV SRNASKSSNV VVFGKREVAE
RGEREEKEEG SKKKMDEFAE DYREVMPHGT LKVDELAKLL A
