UniProtKB - Q9LNC5 (CLO_ARATH)
Protein
110 kDa U5 small nuclear ribonucleoprotein component CLO
Gene
CLO
Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Functioni
Splicing factor involved in pre-mRNA splicing and component of the spliceosome (PubMed:18702672, PubMed:19168457). Essential for reproduction. In female gametophyte, is necessary for the egg cell and central cell fate determination and hence reproductive success. Involved in a mechanism that prevents accessory cells from adopting gametic cell fate. Is necessary to restrict LIS expression to interfere with egg-cell specification (PubMed:18702672). Probable component of U5 small nuclear ribonucleoprotein (snRNP) that is required for pre-mRNA splicing. Plays an essential role in female gametogenesis and embryo development (PubMed:19261069). Required for the control of polarized cell growth and cell proliferation during floral organ morphogenesis (PubMed:19168457).3 Publications
Miscellaneous
This protein was named 'VAJRA', because the shape of flower buds when ready to open resemble VAJRA, an instrument used in esoteric Buddhism.1 Publication
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 145 – 152 | GTPSequence analysis | 8 | |
Nucleotide bindingi | 215 – 219 | GTPSequence analysis | 5 | |
Nucleotide bindingi | 269 – 272 | GTPSequence analysis | 4 |
GO - Molecular functioni
- GTPase activity Source: GO_Central
- GTP binding Source: UniProtKB-KW
- U5 snRNA binding Source: GO_Central
GO - Biological processi
- embryo development ending in seed dormancy Source: TAIR
- floral organ development Source: UniProtKB
- mRNA splicing, via spliceosome Source: GO_Central
- regulation of embryo sac egg cell differentiation Source: TAIR
Keywordsi
Biological process | mRNA processing, mRNA splicing |
Ligand | GTP-binding, Nucleotide-binding |
Names & Taxonomyi
Protein namesi | Recommended name: 110 kDa U5 small nuclear ribonucleoprotein component CLOCuratedAlternative name(s): Protein CLOTHO1 Publication Protein GAMETOPHYTE FACTOR 11 Publication Protein MATERNAL EFFECT EMBRYO ARREST 5Curated Protein VAJRA-11 Publication SNU114 homologCurated |
Gene namesi | Name:CLO1 Publication Synonyms:GFA11 Publication, MEE5Curated, VAJ-11 Publication Ordered Locus Names:At1g06220Imported ORF Names:F9P14.8Imported |
Organismi | Arabidopsis thaliana (Mouse-ear cress) |
Taxonomic identifieri | 3702 [NCBI] |
Taxonomic lineagei | Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliopsida › eudicotyledons › Gunneridae › Pentapetalae › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis |
Proteomesi |
|
Organism-specific databases
Araporti | AT1G06220 |
TAIRi | locus:2038555, AT1G06220 |
Subcellular locationi
Nucleus
- Nucleus speckle 2 Publications
Note: Colocalizes with CLO (PubMed:18702672). Colocalizes with SC35 (PubMed:19168457).2 Publications
Cell Wall
- cell wall Source: TAIR
Extracellular region or secreted
- extracellular region Source: TAIR
Nucleus
- nuclear speck Source: TAIR
- U2-type catalytic step 2 spliceosome Source: GO_Central
- U4/U6 x U5 tri-snRNP complex Source: GO_Central
Plasma Membrane
- plasma membrane Source: TAIR
Other locations
- ribonucleoprotein complex Source: GO_Central
Keywords - Cellular componenti
Nucleus, SpliceosomePathology & Biotechi
Disruption phenotypei
Gametophytic lethality due to female gametophyte defect, when homozygous.2 Publications
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000436561 | 1 – 987 | 110 kDa U5 small nuclear ribonucleoprotein component CLOAdd BLAST | 987 |
Proteomic databases
PaxDbi | Q9LNC5 |
PRIDEi | Q9LNC5 |
ProteomicsDBi | 246749 |
PTM databases
iPTMneti | Q9LNC5 |
Expressioni
Tissue specificityi
Expressed in flower buds, open flowers and siliques. Expressed at low levels in rosettes leaves, cauline leaves and stems.1 Publication
Developmental stagei
Expressed in developing embryos until heart stage.1 Publication
Gene expression databases
ExpressionAtlasi | Q9LNC5, baseline and differential |
Interactioni
Subunit structurei
Interacts with BRR2A and PRP8A.
1 PublicationProtein-protein interaction databases
IntActi | Q9LNC5, 3 interactors |
STRINGi | 3702.AT1G06220.2 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 136 – 422 | tr-type GPROSITE-ProRule annotationAdd BLAST | 287 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 145 – 152 | G1PROSITE-ProRule annotation | 8 | |
Regioni | 189 – 193 | G2PROSITE-ProRule annotation | 5 | |
Regioni | 215 – 218 | G3PROSITE-ProRule annotation | 4 | |
Regioni | 269 – 272 | G4PROSITE-ProRule annotation | 4 | |
Regioni | 395 – 397 | G5PROSITE-ProRule annotation | 3 |
Sequence similaritiesi
Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family.PROSITE-ProRule annotation
Phylogenomic databases
eggNOGi | KOG0468, Eukaryota |
HOGENOMi | CLU_002794_11_2_1 |
InParanoidi | Q9LNC5 |
OMAi | GPDEMGP |
OrthoDBi | 140796at2759 |
PhylomeDBi | Q9LNC5 |
Family and domain databases
CDDi | cd04098, eEF2_C_snRNP, 1 hit cd04167, Snu114p, 1 hit |
Gene3Di | 3.30.230.10, 1 hit |
InterProi | View protein in InterPro IPR035647, EFG_III/V IPR000640, EFG_V-like IPR004161, EFTu-like_2 IPR031950, EFTUD2_N IPR027417, P-loop_NTPase IPR020568, Ribosomal_S5_D2-typ_fold IPR014721, Ribosomal_S5_D2-typ_fold_subgr IPR005225, Small_GTP-bd_dom IPR044121, Snu114_GTP-bd IPR000795, T_Tr_GTP-bd_dom IPR009000, Transl_B-barrel_sf IPR005517, Transl_elong_EFG/EF2_IV IPR035655, U5-116kDa_C |
Pfami | View protein in Pfam PF00679, EFG_C, 1 hit PF03764, EFG_IV, 1 hit PF16004, EFTUD2, 1 hit PF00009, GTP_EFTU, 1 hit PF03144, GTP_EFTU_D2, 1 hit |
PRINTSi | PR00315, ELONGATNFCT |
SMARTi | View protein in SMART SM00838, EFG_C, 1 hit SM00889, EFG_IV, 1 hit |
SUPFAMi | SSF50447, SSF50447, 1 hit SSF52540, SSF52540, 1 hit SSF54211, SSF54211, 1 hit SSF54980, SSF54980, 2 hits |
TIGRFAMsi | TIGR00231, small_GTP, 1 hit |
PROSITEi | View protein in PROSITE PS51722, G_TR_2, 1 hit |
i Sequence
Sequence statusi: Complete.
Q9LNC5-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MESSLYDEFG NYVGPEIESD RDSDDEVEDE DLQDKHLEEN GSDGEQGPGG
60 70 80 90 100
SNGWITTIND VEMENQIVLP EDKKYYPTAE EVYGEDVETL VMDEDEQPLE
110 120 130 140 150
QPIIKPVRDI RFEVGVKDQA TYVSTQFLIG LMSNPALVRN VALVGHLQHG
160 170 180 190 200
KTVFMDMLVE QTHHMSTFNA KNEKHMKYTD TRVDEQERNI SIKAVPMSLV
210 220 230 240 250
LEDSRSKSYL CNIMDTPGHV NFSDEMTASL RLADGAVLIV DAAEGVMVNT
260 270 280 290 300
ERAIRHAIQD HLPIVVVINK VDRLITELKL PPRDAYYKLR HTIEVINNHI
310 320 330 340 350
SAASTTAGDL PLIDPAAGNV CFASGTAGWS FTLQSFAKMY AKLHGVAMDV
360 370 380 390 400
DKFASRLWGD VYYHSDTRVF KRSPPVGGGE RAFVQFILEP LYKIYSQVIG
410 420 430 440 450
EHKKSVETTL AELGVTLSNS AYKLNVRPLL RLACSSVFGS ASGFTDMLVK
460 470 480 490 500
HIPSPREAAA RKVDHSYTGT KDSPIYESMV ECDPSGPLMV NVTKLYPKSD
510 520 530 540 550
TSVFDVFGRV YSGRLQTGQS VRVLGEGYSP EDEEDMTIKE VTKLWIYQAR
560 570 580 590 600
YRIPVSSAPP GSWVLIEGVD ASIMKTATLC NASYDEDVYI FRALQFNTLP
610 620 630 640 650
VVKTATEPLN PSELPKMVEG LRKISKSYPL AITKVEESGE HTILGTGELY
660 670 680 690 700
LDSIMKDLRE LYSEVEVKVA DPVVSFCETV VESSSMKCFA ETPNKKNKIT
710 720 730 740 750
MIAEPLDRGL AEDIENGVVS IDWNRKQLGD FFRTKYDWDL LAARSIWAFG
760 770 780 790 800
PDKQGPNILL DDTLPTEVDR NLMMAVKDSI VQGFQWGARE GPLCDEPIRN
810 820 830 840 850
VKFKIVDARI APEPLHRGSG QMIPTARRVA YSAFLMATPR LMEPVYYVEI
860 870 880 890 900
QTPIDCVTAI YTVLSRRRGH VTSDVPQPGT PAYIVKAFLP VIESFGFETD
910 920 930 940 950
LRYHTQGQAF CLSVFDHWAI VPGDPLDKAI QLRPLEPAPI QHLAREFMVK
960 970 980
TRRRKGMSED VSGNKFFDEA MMVELAQQTG DLHLQMI
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AC025290 Genomic DNA Translation: AAF80219.1 CP002684 Genomic DNA Translation: AEE27961.1 CP002684 Genomic DNA Translation: AEE27962.1 CP002684 Genomic DNA Translation: ANM58878.1 AK226591 mRNA Translation: BAE98706.1 |
PIRi | H86197 |
RefSeqi | NP_001321282.1, NM_001331621.1 NP_172112.1, NM_100503.5 NP_849600.1, NM_179269.4 |
Genome annotation databases
EnsemblPlantsi | AT1G06220.1; AT1G06220.1; AT1G06220 AT1G06220.2; AT1G06220.2; AT1G06220 AT1G06220.3; AT1G06220.3; AT1G06220 |
GeneIDi | 837131 |
Gramenei | AT1G06220.1; AT1G06220.1; AT1G06220 AT1G06220.2; AT1G06220.2; AT1G06220 AT1G06220.3; AT1G06220.3; AT1G06220 |
KEGGi | ath:AT1G06220 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AC025290 Genomic DNA Translation: AAF80219.1 CP002684 Genomic DNA Translation: AEE27961.1 CP002684 Genomic DNA Translation: AEE27962.1 CP002684 Genomic DNA Translation: ANM58878.1 AK226591 mRNA Translation: BAE98706.1 |
PIRi | H86197 |
RefSeqi | NP_001321282.1, NM_001331621.1 NP_172112.1, NM_100503.5 NP_849600.1, NM_179269.4 |
3D structure databases
SMRi | Q9LNC5 |
ModBasei | Search... |
Protein-protein interaction databases
IntActi | Q9LNC5, 3 interactors |
STRINGi | 3702.AT1G06220.2 |
PTM databases
iPTMneti | Q9LNC5 |
Proteomic databases
PaxDbi | Q9LNC5 |
PRIDEi | Q9LNC5 |
ProteomicsDBi | 246749 |
Genome annotation databases
EnsemblPlantsi | AT1G06220.1; AT1G06220.1; AT1G06220 AT1G06220.2; AT1G06220.2; AT1G06220 AT1G06220.3; AT1G06220.3; AT1G06220 |
GeneIDi | 837131 |
Gramenei | AT1G06220.1; AT1G06220.1; AT1G06220 AT1G06220.2; AT1G06220.2; AT1G06220 AT1G06220.3; AT1G06220.3; AT1G06220 |
KEGGi | ath:AT1G06220 |
Organism-specific databases
Araporti | AT1G06220 |
TAIRi | locus:2038555, AT1G06220 |
Phylogenomic databases
eggNOGi | KOG0468, Eukaryota |
HOGENOMi | CLU_002794_11_2_1 |
InParanoidi | Q9LNC5 |
OMAi | GPDEMGP |
OrthoDBi | 140796at2759 |
PhylomeDBi | Q9LNC5 |
Miscellaneous databases
PROi | PR:Q9LNC5 |
Gene expression databases
ExpressionAtlasi | Q9LNC5, baseline and differential |
Family and domain databases
CDDi | cd04098, eEF2_C_snRNP, 1 hit cd04167, Snu114p, 1 hit |
Gene3Di | 3.30.230.10, 1 hit |
InterProi | View protein in InterPro IPR035647, EFG_III/V IPR000640, EFG_V-like IPR004161, EFTu-like_2 IPR031950, EFTUD2_N IPR027417, P-loop_NTPase IPR020568, Ribosomal_S5_D2-typ_fold IPR014721, Ribosomal_S5_D2-typ_fold_subgr IPR005225, Small_GTP-bd_dom IPR044121, Snu114_GTP-bd IPR000795, T_Tr_GTP-bd_dom IPR009000, Transl_B-barrel_sf IPR005517, Transl_elong_EFG/EF2_IV IPR035655, U5-116kDa_C |
Pfami | View protein in Pfam PF00679, EFG_C, 1 hit PF03764, EFG_IV, 1 hit PF16004, EFTUD2, 1 hit PF00009, GTP_EFTU, 1 hit PF03144, GTP_EFTU_D2, 1 hit |
PRINTSi | PR00315, ELONGATNFCT |
SMARTi | View protein in SMART SM00838, EFG_C, 1 hit SM00889, EFG_IV, 1 hit |
SUPFAMi | SSF50447, SSF50447, 1 hit SSF52540, SSF52540, 1 hit SSF54211, SSF54211, 1 hit SSF54980, SSF54980, 2 hits |
TIGRFAMsi | TIGR00231, small_GTP, 1 hit |
PROSITEi | View protein in PROSITE PS51722, G_TR_2, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | CLO_ARATH | |
Accessioni | Q9LNC5Primary (citable) accession number: Q9LNC5 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | July 6, 2016 |
Last sequence update: | October 1, 2000 | |
Last modified: | February 10, 2021 | |
This is version 161 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Plant Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
Reference proteomeDocuments
- Arabidopsis thaliana
Arabidopsis thaliana: entries and gene names - SIMILARITY comments
Index of protein domains and families