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Protein

Cysteine--tRNA ligase, chloroplastic/mitochondrial

Gene

SYCO

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

Catalytic activityi

ATP + L-cysteine + tRNA(Cys) = AMP + diphosphate + L-cysteinyl-tRNA(Cys).Curated

Cofactori

Zn2+By similarityNote: Binds 1 zinc ion per subunit.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi91 – 911ZincBy similarity
Metal bindingi296 – 2961ZincBy similarity
Metal bindingi300 – 3001ZincBy similarity
Binding sitei331 – 3311ATPBy similarity

GO - Molecular functioni

GO - Biological processi

  • cristae formation Source: TAIR
  • cysteinyl-tRNA aminoacylation Source: GO_Central
  • polar nucleus fusion Source: TAIR
  • regulation of programmed cell death Source: TAIR
Complete GO annotation...

Keywords - Molecular functioni

Aminoacyl-tRNA synthetase, Ligase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

ATP-binding, Metal-binding, Nucleotide-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Cysteine--tRNA ligase, chloroplastic/mitochondrialCurated (EC:6.1.1.16Curated)
Alternative name(s):
Cysteinyl-tRNA synthetaseCurated
Short name:
CysRSCurated
Gene namesi
Name:SYCO1 Publication
Synonyms:FIONA1 Publication
Ordered Locus Names:At2g31170Imported
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 2

Organism-specific databases

TAIRiAT2G31170.

Subcellular locationi

GO - Cellular componenti

  • chloroplast Source: TAIR
  • chloroplast stroma Source: TAIR
  • cytosol Source: GO_Central
  • mitochondrion Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Mitochondrion, Plastid

Pathology & Biotechi

Disruption phenotypei

Lethal. In heterozygous plants, aborted seeds.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 563563Cysteine--tRNA ligase, chloroplastic/mitochondrialCuratedPRO_0000433558Add
BLAST
Transit peptidei1 – ?Chloroplast and mitochondrionCurated

Proteomic databases

PaxDbiF4IPY2.
PRIDEiF4IPY2.

PTM databases

iPTMnetiF4IPY2.

Expressioni

Gene expression databases

ExpressionAtlasiF4IPY2. baseline and differential.
GenevisibleiF4IPY2. AT.

Interactioni

Protein-protein interaction databases

STRINGi3702.AT2G31170.1.

Structurei

3D structure databases

ProteinModelPortaliF4IPY2.
SMRiF4IPY2. Positions 65-548.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi93 – 10311"HIGH" regionCuratedAdd
BLAST
Motifi328 – 3325"KMSKS" regionCurated

Sequence similaritiesi

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiKOG2007. Eukaryota.
COG0215. LUCA.
InParanoidiF4IPY2.
KOiK01883.
OMAiRIFYIYQ.

Family and domain databases

Gene3Di3.40.50.620. 1 hit.
HAMAPiMF_00041. Cys_tRNA_synth.
InterProiIPR015803. Cys-tRNA-ligase.
IPR015273. Cys-tRNA-synt_Ia_DALR.
IPR024909. Cys-tRNA/MSH_ligase.
IPR014729. Rossmann-like_a/b/a_fold.
IPR032678. tRNA-synt_1_cat_dom.
IPR009080. tRNAsynth_Ia_anticodon-bd.
[Graphical view]
PANTHERiPTHR10890. PTHR10890. 1 hit.
PfamiPF09190. DALR_2. 1 hit.
PF01406. tRNA-synt_1e. 1 hit.
[Graphical view]
PRINTSiPR00983. TRNASYNTHCYS.
SUPFAMiSSF47323. SSF47323. 1 hit.
TIGRFAMsiTIGR00435. cysS. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 1 isoform i produced by alternative splicing. AlignAdd to basket

Note: A number of isoforms are produced. According to EST sequences.Curated

Isoform 1 (identifier: F4IPY2-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MASSVLNLFK SCRPFTPIRF SSLPKSQFRI QFPLRPGKET QLRRCFTTLS
60 70 80 90 100
SLTDGGAPIS GGKELWLHNT MSRKKELFKP KVEGKVGMYV CGVTAYDLSH
110 120 130 140 150
IGHARVYVTF DVLLRYLKHL GYEVSYVRNF TDVDDKIIAR AKELEEDPIS
160 170 180 190 200
LSRRFCEEFN RDMEQLQCLD PSVQPRVSDH IPQIIDLIKQ ILDNGYAYKV
210 220 230 240 250
DGDIYFSVDK FPTYGKLSGR KLEDNRAGER VAVDTRKKHP ADFALWKAAK
260 270 280 290 300
EGEPFWESPW GRGRPGWHIE CSAMSAAYLG YSFDIHGGGM DLVFPHHENE
310 320 330 340 350
IAQSCAACDS SNISYWIHNG FVTVDSEKMS KSLGNFFTIR QVIDLYHPLA
360 370 380 390 400
LRLFLMGTHY RSPINYSDFL LESASERIFY IYQTLHDCES ALGEKDSTFE
410 420 430 440 450
NGSVPSDTLT SINTFRTEFV ASMSDDLLTP VTLAAMSEPL KTINDLIHTR
460 470 480 490 500
KGKKQARREE SLKALETTIR DVLTILGLMP TSYSEVLEQL KEKALKRAGL
510 520 530 540 550
KEEDVLQRVQ ERTDARKNKE YERSDAIRKD LAKVGIALMD SPEGTTWRPA
560
IPLALQEPVT TTP
Length:563
Mass (Da):63,914
Last modified:June 28, 2011 - v1
Checksum:i3A449280DA3FB30F
GO

Sequence cautioni

The sequence AAD20662.2 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence AAK43958.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence AAM15026.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC005311 Genomic DNA. Translation: AAM15026.1. Different initiation.
AC006593 Genomic DNA. Translation: AAD20662.2. Different initiation.
CP002685 Genomic DNA. Translation: AEC08502.1.
AF370143 mRNA. Translation: AAK43958.1. Different initiation.
AY051059 mRNA. Translation: AAK93736.1.
AK230142 mRNA. Translation: BAF01956.1.
PIRiD84717.
RefSeqiNP_565717.2. NM_128673.4. [F4IPY2-1]
UniGeneiAt.21710.

Genome annotation databases

EnsemblPlantsiAT2G31170.1; AT2G31170.1; AT2G31170. [F4IPY2-1]
GeneIDi817673.
KEGGiath:AT2G31170.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC005311 Genomic DNA. Translation: AAM15026.1. Different initiation.
AC006593 Genomic DNA. Translation: AAD20662.2. Different initiation.
CP002685 Genomic DNA. Translation: AEC08502.1.
AF370143 mRNA. Translation: AAK43958.1. Different initiation.
AY051059 mRNA. Translation: AAK93736.1.
AK230142 mRNA. Translation: BAF01956.1.
PIRiD84717.
RefSeqiNP_565717.2. NM_128673.4. [F4IPY2-1]
UniGeneiAt.21710.

3D structure databases

ProteinModelPortaliF4IPY2.
SMRiF4IPY2. Positions 65-548.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT2G31170.1.

PTM databases

iPTMnetiF4IPY2.

Proteomic databases

PaxDbiF4IPY2.
PRIDEiF4IPY2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT2G31170.1; AT2G31170.1; AT2G31170. [F4IPY2-1]
GeneIDi817673.
KEGGiath:AT2G31170.

Organism-specific databases

TAIRiAT2G31170.

Phylogenomic databases

eggNOGiKOG2007. Eukaryota.
COG0215. LUCA.
InParanoidiF4IPY2.
KOiK01883.
OMAiRIFYIYQ.

Miscellaneous databases

PROiF4IPY2.

Gene expression databases

ExpressionAtlasiF4IPY2. baseline and differential.
GenevisibleiF4IPY2. AT.

Family and domain databases

Gene3Di3.40.50.620. 1 hit.
HAMAPiMF_00041. Cys_tRNA_synth.
InterProiIPR015803. Cys-tRNA-ligase.
IPR015273. Cys-tRNA-synt_Ia_DALR.
IPR024909. Cys-tRNA/MSH_ligase.
IPR014729. Rossmann-like_a/b/a_fold.
IPR032678. tRNA-synt_1_cat_dom.
IPR009080. tRNAsynth_Ia_anticodon-bd.
[Graphical view]
PANTHERiPTHR10890. PTHR10890. 1 hit.
PfamiPF09190. DALR_2. 1 hit.
PF01406. tRNA-synt_1e. 1 hit.
[Graphical view]
PRINTSiPR00983. TRNASYNTHCYS.
SUPFAMiSSF47323. SSF47323. 1 hit.
TIGRFAMsiTIGR00435. cysS. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  2. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  3. "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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 7-563 AND 71-563.
    Strain: cv. Columbia.
  4. "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs."
    Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A., Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y., Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K.
    , Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y., Shinozaki K.
    Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 424-563.
    Strain: cv. Columbia.
  5. "Duplication and quadruplication of Arabidopsis thaliana cysteinyl- and asparaginyl-tRNA synthetase genes of organellar origin."
    Peeters N.M., Chapron A., Giritch A., Grandjean O., Lancelin D., Lhomme T., Vivrel A., Small I.
    J. Mol. Evol. 50:413-423(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.
  6. "The gametic central cell of Arabidopsis determines the lifespan of adjacent accessory cells."
    Kagi C., Baumann N., Nielsen N., Stierhof Y.D., Gross-Hardt R.
    Proc. Natl. Acad. Sci. U.S.A. 107:22350-22355(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, DISRUPTION PHENOTYPE.

Entry informationi

Entry nameiSYCM_ARATH
AccessioniPrimary (citable) accession number: F4IPY2
Secondary accession number(s): O82267, Q0WLQ1, Q93VX6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 22, 2015
Last sequence update: June 28, 2011
Last modified: July 6, 2016
This is version 44 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Aminoacyl-tRNA synthetases
    List of aminoacyl-tRNA synthetase entries
  2. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.