CAF2P_ARATH
ID CAF2P_ARATH Reviewed; 564 AA.
AC Q9LDA9;
DT 03-APR-2007, integrated into UniProtKB/Swiss-Prot.
DT 01-OCT-2000, sequence version 1.
DT 03-AUG-2022, entry version 106.
DE RecName: Full=CRS2-associated factor 2, chloroplastic;
DE AltName: Full=Chloroplastic group IIA intron splicing facilitator CRS2-associated factor 2;
DE Flags: Precursor;
GN OrderedLocusNames=At1g23400; ORFNames=F26F24.27, F28C11.4;
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=11130712; DOI=10.1038/35048500;
RA Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O.,
RA Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E.,
RA Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K., Conn L.,
RA Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P.,
RA Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D.,
RA Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J.,
RA Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L.,
RA Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A.,
RA Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A.,
RA Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M.,
RA Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M.,
RA Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P.,
RA Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D.,
RA Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D.,
RA Yu G., Fraser C.M., Venter J.C., Davis R.W.;
RT "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana.";
RL Nature 408:816-820(2000).
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: Essential protein required for the splicing of group IIB
CC introns in chloroplasts. Forms splicing particles with CRS2. Interacts
CC with RNA 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 CAF2 (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; AC005292; AAF87005.1; -; Genomic_DNA.
DR EMBL; AC007945; AAF79596.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE30383.1; -; Genomic_DNA.
DR EMBL; AY062732; AAL32810.1; -; mRNA.
DR EMBL; AY114649; AAM47968.1; -; mRNA.
DR RefSeq; NP_173754.2; NM_102189.4.
DR AlphaFoldDB; Q9LDA9; -.
DR SMR; Q9LDA9; -.
DR STRING; 3702.AT1G23400.1; -.
DR PaxDb; Q9LDA9; -.
DR PRIDE; Q9LDA9; -.
DR ProteomicsDB; 239088; -.
DR EnsemblPlants; AT1G23400.1; AT1G23400.1; AT1G23400.
DR GeneID; 838948; -.
DR Gramene; AT1G23400.1; AT1G23400.1; AT1G23400.
DR KEGG; ath:AT1G23400; -.
DR Araport; AT1G23400; -.
DR TAIR; locus:2028100; AT1G23400.
DR eggNOG; ENOG502QW9P; Eukaryota.
DR HOGENOM; CLU_012688_1_0_1; -.
DR InParanoid; Q9LDA9; -.
DR OMA; YSECPRA; -.
DR OrthoDB; 408261at2759; -.
DR PhylomeDB; Q9LDA9; -.
DR PRO; PR:Q9LDA9; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; Q9LDA9; baseline and differential.
DR Genevisible; Q9LDA9; 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; 1.
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..43
FT /note="Chloroplast"
FT /evidence="ECO:0000255"
FT CHAIN 44..564
FT /note="CRS2-associated factor 2, chloroplastic"
FT /id="PRO_0000283619"
FT DOMAIN 201..297
FT /note="CRM 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00626"
FT DOMAIN 319..415
FT /note="CRM 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00626"
FT REGION 14..73
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 420..448
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 453..475
FT /note="CRS2 binding"
FT /evidence="ECO:0000250"
FT REGION 526..549
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 43..65
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 526..540
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 564 AA; 63602 MW; D2EF4B4507A569E0 CRC64;
MAIVASLRDI NLFSSLPSTP PMADSSSGTF RPAPPIPIPK YAPSNRNRNQ KTNHQTDTNP
KKPQSNPALK LPHHRTRYYK PVKEGVISSD GDRTILIGDS GVSYQLPGAP FEFQFSYSET
PKVKPVGIRE PAFMPFAPPT MPRPWTGKAP LKKSKKKIPL FDSFNPPPAG KSGVKYVEMP
GPLPFGRYPK EGMNREEVLG EPLKRWEKGM LIKPHMHDNR QVNLGRDGFT HNMLELIHSH
WKRRRVCKVR CKGVPTVDMN NVCRVLEEKT GGEIIHRVGG VVYLFRGRNY NYRTRPQYPL
MLWKPAAPVY PKLIQEVPEG LTKEEAHEFR VKGKSLRPIC KLSKNGVYVS LVKDVRDAFE
LSSLVKVDCP GLEPSDYKKI GAKLKELVPC VLLSFDDEQI LMWRGREWKS RFVDNPLIPS
LSETNTTNEL DPSDKPSEEQ TVANPSTTIS SPKMISLWQR ALESSKAVIL EELDLGPDDL
LKKVEELEGT SLAAEHTYTA MVLSNTDGAA EDYVDEKDRS EEYYSDIDDD FDDECSDDES
LDPVGPVGSL PVDKIVRKLR ERLK
