ID PPIL3_HUMAN Reviewed; 161 AA. AC Q9H2H8; Q86WF9; Q96IA9; Q9BXZ1; DT 30-AUG-2005, integrated into UniProtKB/Swiss-Prot. DT 01-MAR-2001, sequence version 1. DT 27-MAR-2024, entry version 178. DE RecName: Full=Peptidyl-prolyl cis-trans isomerase-like 3; DE Short=PPIase; DE EC=5.2.1.8; DE AltName: Full=Cyclophilin J; DE Short=CyPJ; DE AltName: Full=Cyclophilin-like protein PPIL3; DE AltName: Full=Rotamase PPIL3; GN Name=PPIL3; OS Homo sapiens (Human). OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; OC Homo. OX NCBI_TaxID=9606; RN [1] RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2), AND TISSUE SPECIFICITY. RC TISSUE=Fetal brain; RX PubMed=11435694; DOI=10.1159/000056909; RA Zhou Z., Ying K., Dai J., Tang R., Wang W., Huang Y., Zhao W., Xie Y., RA Mao Y.; RT "Molecular cloning and characterization of a novel peptidylprolyl isomerase RT (cyclophilin)-like gene (PPIL3) from human fetal brain."; RL Cytogenet. Cell Genet. 92:231-236(2001). RN [2] RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1). RA Ding J.B., Yu L., Zhao S.Y.; RL Submitted (APR-1999) to the EMBL/GenBank/DDBJ databases. RN [3] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). RC TISSUE=Embryo; RX PubMed=14702039; DOI=10.1038/ng1285; RA Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., RA Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., RA Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S., RA Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., RA Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., RA Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., RA Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., RA Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., RA Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., RA Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., RA Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., RA Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., RA Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., RA Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., RA Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., RA Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., RA Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., RA Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., RA Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., RA Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., RA Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., RA Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., RA Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., RA Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., RA Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., RA Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., RA Isogai T., Sugano S.; RT "Complete sequencing and characterization of 21,243 full-length human RT cDNAs."; RL Nat. Genet. 36:40-45(2004). RN [4] RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. RX PubMed=15815621; DOI=10.1038/nature03466; RA Hillier L.W., Graves T.A., Fulton R.S., Fulton L.A., Pepin K.H., Minx P., RA Wagner-McPherson C., Layman D., Wylie K., Sekhon M., Becker M.C., RA Fewell G.A., Delehaunty K.D., Miner T.L., Nash W.E., Kremitzki C., Oddy L., RA Du H., Sun H., Bradshaw-Cordum H., Ali J., Carter J., Cordes M., Harris A., RA Isak A., van Brunt A., Nguyen C., Du F., Courtney L., Kalicki J., RA Ozersky P., Abbott S., Armstrong J., Belter E.A., Caruso L., Cedroni M., RA Cotton M., Davidson T., Desai A., Elliott G., Erb T., Fronick C., Gaige T., RA Haakenson W., Haglund K., Holmes A., Harkins R., Kim K., Kruchowski S.S., RA Strong C.M., Grewal N., Goyea E., Hou S., Levy A., Martinka S., Mead K., RA McLellan M.D., Meyer R., Randall-Maher J., Tomlinson C., RA Dauphin-Kohlberg S., Kozlowicz-Reilly A., Shah N., Swearengen-Shahid S., RA Snider J., Strong J.T., Thompson J., Yoakum M., Leonard S., Pearman C., RA Trani L., Radionenko M., Waligorski J.E., Wang C., Rock S.M., RA Tin-Wollam A.-M., Maupin R., Latreille P., Wendl M.C., Yang S.-P., Pohl C., RA Wallis J.W., Spieth J., Bieri T.A., Berkowicz N., Nelson J.O., Osborne J., RA Ding L., Meyer R., Sabo A., Shotland Y., Sinha P., Wohldmann P.E., RA Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Jones T.A., She X., RA Ciccarelli F.D., Izaurralde E., Taylor J., Schmutz J., Myers R.M., RA Cox D.R., Huang X., McPherson J.D., Mardis E.R., Clifton S.W., Warren W.C., RA Chinwalla A.T., Eddy S.R., Marra M.A., Ovcharenko I., Furey T.S., RA Miller W., Eichler E.E., Bork P., Suyama M., Torrents D., Waterston R.H., RA Wilson R.K.; RT "Generation and annotation of the DNA sequences of human chromosomes 2 and RT 4."; RL Nature 434:724-731(2005). RN [5] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1), AND VARIANT GLU-146. RC TISSUE=Placenta; RX PubMed=15489334; DOI=10.1101/gr.2596504; RG The MGC Project Team; RT "The status, quality, and expansion of the NIH full-length cDNA project: RT the Mammalian Gene Collection (MGC)."; RL Genome Res. 14:2121-2127(2004). RN [6] RP IDENTIFICATION BY MASS SPECTROMETRY, AND IDENTIFICATION IN THE SPLICEOSOMAL RP C COMPLEX. RX PubMed=11991638; DOI=10.1017/s1355838202021088; RA Jurica M.S., Licklider L.J., Gygi S.P., Grigorieff N., Moore M.J.; RT "Purification and characterization of native spliceosomes suitable for RT three-dimensional structural analysis."; RL RNA 8:426-439(2002). RN [7] RP ACETYLATION [LARGE SCALE ANALYSIS] AT SER-2, CLEAVAGE OF INITIATOR RP METHIONINE [LARGE SCALE ANALYSIS], AND IDENTIFICATION BY MASS SPECTROMETRY RP [LARGE SCALE ANALYSIS]. RX PubMed=19413330; DOI=10.1021/ac9004309; RA Gauci S., Helbig A.O., Slijper M., Krijgsveld J., Heck A.J., Mohammed S.; RT "Lys-N and trypsin cover complementary parts of the phosphoproteome in a RT refined SCX-based approach."; RL Anal. Chem. 81:4493-4501(2009). RN [8] RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RX PubMed=21269460; DOI=10.1186/1752-0509-5-17; RA Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., RA Bennett K.L., Superti-Furga G., Colinge J.; RT "Initial characterization of the human central proteome."; RL BMC Syst. Biol. 5:17-17(2011). RN [9] RP ACETYLATION [LARGE SCALE ANALYSIS] AT SER-2, CLEAVAGE OF INITIATOR RP METHIONINE [LARGE SCALE ANALYSIS], AND IDENTIFICATION BY MASS SPECTROMETRY RP [LARGE SCALE ANALYSIS]. RX PubMed=22223895; DOI=10.1074/mcp.m111.015131; RA Bienvenut W.V., Sumpton D., Martinez A., Lilla S., Espagne C., Meinnel T., RA Giglione C.; RT "Comparative large-scale characterisation of plant vs. mammal proteins RT reveals similar and idiosyncratic N-alpha acetylation features."; RL Mol. Cell. Proteomics 11:M111.015131-M111.015131(2012). RN [10] RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RC TISSUE=Liver; RX PubMed=24275569; DOI=10.1016/j.jprot.2013.11.014; RA Bian Y., Song C., Cheng K., Dong M., Wang F., Huang J., Sun D., Wang L., RA Ye M., Zou H.; RT "An enzyme assisted RP-RPLC approach for in-depth analysis of human liver RT phosphoproteome."; RL J. Proteomics 96:253-262(2014). RN [11] RP X-RAY CRYSTALLOGRAPHY (2.6 ANGSTROMS). RX PubMed=15735342; DOI=10.1107/s0907444904033189; RA Huang L.-L., Zhao X.-M., Huang C.-Q., Yu L., Xia Z.-X.; RT "Structure of recombinant human cyclophilin J, a novel member of the RT cyclophilin family."; RL Acta Crystallogr. D 61:316-321(2005). CC -!- FUNCTION: PPIases accelerate the folding of proteins. It catalyzes the CC cis-trans isomerization of proline imidic peptide bonds in CC oligopeptides. May be involved in pre-mRNA splicing. CC -!- CATALYTIC ACTIVITY: CC Reaction=[protein]-peptidylproline (omega=180) = [protein]- CC peptidylproline (omega=0); Xref=Rhea:RHEA:16237, Rhea:RHEA- CC COMP:10747, Rhea:RHEA-COMP:10748, ChEBI:CHEBI:83833, CC ChEBI:CHEBI:83834; EC=5.2.1.8; CC -!- SUBUNIT: Identified in the spliceosome C complex. CC {ECO:0000269|PubMed:11991638}. CC -!- INTERACTION: CC Q9H2H8; Q86UT8: CENATAC; NbExp=3; IntAct=EBI-751051, EBI-11028020; CC Q9H2H8; O95391: SLU7; NbExp=5; IntAct=EBI-751051, EBI-750559; CC Q9H2H8; Q99152: VP3; Xeno; NbExp=3; IntAct=EBI-751051, EBI-1776808; CC -!- ALTERNATIVE PRODUCTS: CC Event=Alternative splicing; Named isoforms=2; CC Name=1; Synonyms=PPIL3b; CC IsoId=Q9H2H8-1; Sequence=Displayed; CC Name=2; Synonyms=PPIL3a; CC IsoId=Q9H2H8-2; Sequence=VSP_015468; CC -!- TISSUE SPECIFICITY: Ubiquitous. Detected at low levels. CC {ECO:0000269|PubMed:11435694}. CC -!- SIMILARITY: Belongs to the cyclophilin-type PPIase family. PPIL3 CC subfamily. {ECO:0000305}. CC --------------------------------------------------------------------------- CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms CC Distributed under the Creative Commons Attribution (CC BY 4.0) License CC --------------------------------------------------------------------------- DR EMBL; AF251049; AAK34939.1; -; mRNA. DR EMBL; AF271652; AAG44766.1; -; mRNA. DR EMBL; AF146799; AAO64723.1; -; mRNA. DR EMBL; AK027315; BAB55036.1; -; mRNA. DR EMBL; AC005037; AAY14723.1; -; Genomic_DNA. DR EMBL; BC007693; AAH07693.1; -; mRNA. DR CCDS; CCDS2332.1; -. [Q9H2H8-2] DR CCDS; CCDS2333.1; -. [Q9H2H8-1] DR RefSeq; NP_115861.1; NM_032472.3. [Q9H2H8-2] DR RefSeq; NP_570981.1; NM_130906.2. [Q9H2H8-1] DR RefSeq; XP_005246708.1; XM_005246651.3. [Q9H2H8-2] DR RefSeq; XP_005246709.1; XM_005246652.4. [Q9H2H8-1] DR RefSeq; XP_011509660.1; XM_011511358.2. [Q9H2H8-1] DR RefSeq; XP_016859841.1; XM_017004352.1. [Q9H2H8-2] DR RefSeq; XP_016859842.1; XM_017004353.1. [Q9H2H8-2] DR RefSeq; XP_016859843.1; XM_017004354.1. [Q9H2H8-2] DR RefSeq; XP_016859844.1; XM_017004355.1. [Q9H2H8-1] DR RefSeq; XP_016859845.1; XM_017004356.1. [Q9H2H8-1] DR PDB; 1XYH; X-ray; 2.60 A; A=1-161. DR PDB; 2OJU; X-ray; 2.40 A; A/B=1-161. DR PDB; 2OK3; X-ray; 2.00 A; A=1-161. DR PDB; 8C6J; EM; 2.80 A; C3=1-161. DR PDBsum; 1XYH; -. DR PDBsum; 2OJU; -. DR PDBsum; 2OK3; -. DR PDBsum; 8C6J; -. DR AlphaFoldDB; Q9H2H8; -. DR EMDB; EMD-16452; -. DR SMR; Q9H2H8; -. DR BioGRID; 119820; 84. DR CORUM; Q9H2H8; -. DR IntAct; Q9H2H8; 23. DR MINT; Q9H2H8; -. DR STRING; 9606.ENSP00000286175; -. DR GlyGen; Q9H2H8; 1 site, 1 O-linked glycan (1 site). DR iPTMnet; Q9H2H8; -. DR MetOSite; Q9H2H8; -. DR PhosphoSitePlus; Q9H2H8; -. DR BioMuta; PPIL3; -. DR DMDM; 73921766; -. DR EPD; Q9H2H8; -. DR jPOST; Q9H2H8; -. DR MassIVE; Q9H2H8; -. DR MaxQB; Q9H2H8; -. DR PeptideAtlas; Q9H2H8; -. DR ProteomicsDB; 80550; -. [Q9H2H8-1] DR ProteomicsDB; 80551; -. [Q9H2H8-2] DR Pumba; Q9H2H8; -. DR TopDownProteomics; Q9H2H8-1; -. [Q9H2H8-1] DR Antibodypedia; 34922; 266 antibodies from 24 providers. DR DNASU; 53938; -. DR Ensembl; ENST00000286175.12; ENSP00000286175.8; ENSG00000240344.10. [Q9H2H8-2] DR Ensembl; ENST00000392283.9; ENSP00000376107.4; ENSG00000240344.10. [Q9H2H8-1] DR Ensembl; ENST00000409449.5; ENSP00000387012.1; ENSG00000240344.10. [Q9H2H8-2] DR GeneID; 53938; -. DR KEGG; hsa:53938; -. DR MANE-Select; ENST00000392283.9; ENSP00000376107.4; NM_130906.3; NP_570981.1. DR UCSC; uc002uwh.4; human. [Q9H2H8-1] DR AGR; HGNC:9262; -. DR CTD; 53938; -. DR DisGeNET; 53938; -. DR GeneCards; PPIL3; -. DR HGNC; HGNC:9262; PPIL3. DR HPA; ENSG00000240344; Low tissue specificity. DR MIM; 615811; gene. DR neXtProt; NX_Q9H2H8; -. DR OpenTargets; ENSG00000240344; -. DR PharmGKB; PA33589; -. DR VEuPathDB; HostDB:ENSG00000240344; -. DR GeneTree; ENSGT00940000153189; -. DR HOGENOM; CLU_012062_16_3_1; -. DR InParanoid; Q9H2H8; -. DR OMA; VPFHRVM; -. DR OrthoDB; 554597at2759; -. DR PhylomeDB; Q9H2H8; -. DR TreeFam; TF352224; -. DR BRENDA; 5.2.1.8; 2681. DR PathwayCommons; Q9H2H8; -. DR Reactome; R-HSA-72163; mRNA Splicing - Major Pathway. DR SignaLink; Q9H2H8; -. DR BioGRID-ORCS; 53938; 13 hits in 1162 CRISPR screens. DR ChiTaRS; PPIL3; human. DR EvolutionaryTrace; Q9H2H8; -. DR GeneWiki; PPIL3; -. DR GenomeRNAi; 53938; -. DR Pharos; Q9H2H8; Tbio. DR PRO; PR:Q9H2H8; -. DR Proteomes; UP000005640; Chromosome 2. DR RNAct; Q9H2H8; Protein. DR Bgee; ENSG00000240344; Expressed in ileal mucosa and 180 other cell types or tissues. DR ExpressionAtlas; Q9H2H8; baseline and differential. DR GO; GO:0071013; C:catalytic step 2 spliceosome; IDA:UniProtKB. DR GO; GO:0005654; C:nucleoplasm; TAS:Reactome. DR GO; GO:0003755; F:peptidyl-prolyl cis-trans isomerase activity; IBA:GO_Central. DR GO; GO:0000398; P:mRNA splicing, via spliceosome; IC:UniProtKB. DR GO; GO:0006457; P:protein folding; IEA:InterPro. DR CDD; cd01928; Cyclophilin_PPIL3_like; 1. DR Gene3D; 2.40.100.10; Cyclophilin-like; 1. DR InterPro; IPR029000; Cyclophilin-like_dom_sf. DR InterPro; IPR024936; Cyclophilin-type_PPIase. DR InterPro; IPR020892; Cyclophilin-type_PPIase_CS. DR InterPro; IPR002130; Cyclophilin-type_PPIase_dom. DR InterPro; IPR044666; Cyclophilin_A-like. DR PANTHER; PTHR45625:SF2; PEPTIDYL-PROLYL CIS-TRANS ISOMERASE-LIKE 3; 1. DR PANTHER; PTHR45625; PEPTIDYL-PROLYL CIS-TRANS ISOMERASE-RELATED; 1. DR Pfam; PF00160; Pro_isomerase; 1. DR PIRSF; PIRSF001467; Peptidylpro_ismrse; 1. DR PRINTS; PR00153; CSAPPISMRASE. DR SUPFAM; SSF50891; Cyclophilin-like; 1. DR PROSITE; PS00170; CSA_PPIASE_1; 1. DR PROSITE; PS50072; CSA_PPIASE_2; 1. DR Genevisible; Q9H2H8; HS. PE 1: Evidence at protein level; KW 3D-structure; Acetylation; Alternative splicing; Isomerase; Methylation; KW mRNA processing; mRNA splicing; Reference proteome; Rotamase; Spliceosome. FT INIT_MET 1 FT /note="Removed" FT /evidence="ECO:0007744|PubMed:19413330, FT ECO:0007744|PubMed:22223895" FT CHAIN 2..161 FT /note="Peptidyl-prolyl cis-trans isomerase-like 3" FT /id="PRO_0000064166" FT DOMAIN 2..154 FT /note="PPIase cyclophilin-type" FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00156" FT MOD_RES 2 FT /note="N-acetylserine" FT /evidence="ECO:0007744|PubMed:19413330, FT ECO:0007744|PubMed:22223895" FT MOD_RES 61 FT /note="Omega-N-methylarginine" FT /evidence="ECO:0000250|UniProtKB:Q9D6L8" FT VAR_SEQ 27..58 FT /note="NFLALCASNYYNGCIFHRNIKGFMVQTGDPTG -> MESRCVPQAGVQWRDL FT GSLQPPPPGFKQVFCLSLPR (in isoform 2)" FT /evidence="ECO:0000303|PubMed:11435694, FT ECO:0000303|PubMed:14702039" FT /id="VSP_015468" FT VARIANT 146 FT /note="D -> E (in dbSNP:rs7562391)" FT /evidence="ECO:0000269|PubMed:15489334" FT /id="VAR_023417" FT CONFLICT 61..62 FT /note="RG -> KR (in Ref. 2; AAO64723)" FT /evidence="ECO:0000305" FT CONFLICT 65 FT /note="S -> V (in Ref. 2; AAO64723)" FT /evidence="ECO:0000305" FT CONFLICT 78 FT /note="Y -> I (in Ref. 2; AAO64723)" FT /evidence="ECO:0000305" FT STRAND 2..7 FT /evidence="ECO:0007829|PDB:2OK3" FT STRAND 10..16 FT /evidence="ECO:0007829|PDB:2OK3" FT TURN 18..20 FT /evidence="ECO:0007829|PDB:2OK3" FT HELIX 22..33 FT /evidence="ECO:0007829|PDB:2OK3" FT TURN 34..39 FT /evidence="ECO:0007829|PDB:2OK3" FT STRAND 44..46 FT /evidence="ECO:0007829|PDB:2OK3" FT TURN 47..49 FT /evidence="ECO:0007829|PDB:2OK3" FT STRAND 50..53 FT /evidence="ECO:0007829|PDB:2OK3" FT STRAND 58..61 FT /evidence="ECO:0007829|PDB:2OK3" FT STRAND 86..89 FT /evidence="ECO:0007829|PDB:2OK3" FT STRAND 92..95 FT /evidence="ECO:0007829|PDB:2OJU" FT STRAND 101..106 FT /evidence="ECO:0007829|PDB:2OK3" FT HELIX 109..111 FT /evidence="ECO:0007829|PDB:2OK3" FT TURN 112..114 FT /evidence="ECO:0007829|PDB:2OK3" FT STRAND 117..123 FT /evidence="ECO:0007829|PDB:2OK3" FT HELIX 125..132 FT /evidence="ECO:0007829|PDB:2OK3" FT TURN 138..140 FT /evidence="ECO:0007829|PDB:2OK3" FT STRAND 143..145 FT /evidence="ECO:0007829|PDB:2OK3" FT STRAND 148..155 FT /evidence="ECO:0007829|PDB:2OK3" SQ SEQUENCE 161 AA; 18155 MW; 5FE190D7858B07D4 CRC64; MSVTLHTDVG DIKIEVFCER TPKTCENFLA LCASNYYNGC IFHRNIKGFM VQTGDPTGTG RGGNSIWGKK FEDEYSEYLK HNVRGVVSMA NNGPNTNGSQ FFITYGKQPH LDMKYTVFGK VIDGLETLDE LEKLPVNEKT YRPLNDVHIK DITIHANPFA Q //