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B0U3Q9

- SYI_XYLFM

UniProt

B0U3Q9 - SYI_XYLFM

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Protein

Isoleucine--tRNA ligase

Gene

ileS

Organism
Xylella fastidiosa (strain M12)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi

Functioni

Catalyzes the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pretransfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Val-tRNA(Ile).UniRule annotation

Catalytic activityi

ATP + L-isoleucine + tRNA(Ile) = AMP + diphosphate + L-isoleucyl-tRNA(Ile).UniRule annotation

Cofactori

Binds 1 zinc ion per subunit.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei577 – 5771Aminoacyl-adenylateUniRule annotation
Binding sitei621 – 6211ATPUniRule annotation
Metal bindingi906 – 9061ZincUniRule annotation
Metal bindingi909 – 9091ZincUniRule annotation
Metal bindingi926 – 9261ZincUniRule annotation
Metal bindingi929 – 9291ZincUniRule annotation

GO - Molecular functioni

  1. aminoacyl-tRNA editing activity Source: InterPro
  2. ATP binding Source: UniProtKB-HAMAP
  3. isoleucine-tRNA ligase activity Source: UniProtKB-HAMAP
  4. zinc ion binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. isoleucyl-tRNA aminoacylation Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Aminoacyl-tRNA synthetase, Ligase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

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

Enzyme and pathway databases

BioCyciXFAS405440:GH0D-1613-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Isoleucine--tRNA ligaseUniRule annotation (EC:6.1.1.5UniRule annotation)
Alternative name(s):
Isoleucyl-tRNA synthetaseUniRule annotation
Short name:
IleRSUniRule annotation
Gene namesi
Name:ileSUniRule annotation
Ordered Locus Names:Xfasm12_1578
OrganismiXylella fastidiosa (strain M12)
Taxonomic identifieri405440 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXylella
ProteomesiUP000008539: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 943943Isoleucine--tRNA ligasePRO_1000189218Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi405440.Xfasm12_1578.

Structurei

3D structure databases

ProteinModelPortaliB0U3Q9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi59 – 6911"HIGH" regionAdd
BLAST
Motifi618 – 6225"KMSKS" region

Domaini

IleRS has two distinct active sites: one for aminoacylation and one for editing. The misactivated valine is translocated from the active site to the editing site, which sterically excludes the correctly activated isoleucine. The single editing site contains two valyl binding pockets, one specific for each substrate (Val-AMP or Val-tRNA(Ile)).UniRule annotation

Sequence similaritiesi

Belongs to the class-I aminoacyl-tRNA synthetase family. IleS type 1 subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG0060.
HOGENOMiHOG000246402.
KOiK01870.
OMAiKPVHWCL.
OrthoDBiEOG644ZM1.

Family and domain databases

Gene3Di1.10.730.10. 1 hit.
3.40.50.620. 2 hits.
3.90.740.10. 1 hit.
HAMAPiMF_02002. Ile_tRNA_synth_type1.
InterProiIPR001412. aa-tRNA-synth_I_CS.
IPR002300. aa-tRNA-synth_Ia.
IPR002301. Ile-tRNA-ligase.
IPR023585. Ile-tRNA-ligase_type1.
IPR014729. Rossmann-like_a/b/a_fold.
IPR009080. tRNAsynth_1a_anticodon-bd.
IPR013155. V/L/I-tRNA-synth_anticodon-bd.
IPR009008. Val/Leu/Ile-tRNA-synth_edit.
IPR010663. Znf_DNA_glyclase/IsotRNA_synth.
[Graphical view]
PANTHERiPTHR11946:SF9. PTHR11946:SF9. 1 hit.
PfamiPF08264. Anticodon_1. 1 hit.
PF00133. tRNA-synt_1. 1 hit.
PF06827. zf-FPG_IleRS. 1 hit.
[Graphical view]
PRINTSiPR00984. TRNASYNTHILE.
SUPFAMiSSF47323. SSF47323. 1 hit.
SSF50677. SSF50677. 1 hit.
TIGRFAMsiTIGR00392. ileS. 1 hit.
PROSITEiPS00178. AA_TRNA_LIGASE_I. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B0U3Q9-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSQDYKTTLH LPATDFPMRG DLPKREPAIL ERWERDDFYA QLRAHAKGRP
60 70 80 90 100
LFLLHDGPPY ANGQIHLGHA VNKILKDIII KSKHLDGFDA PYIPGWDCHG
110 120 130 140 150
LPIEIAIEKK YGKVGVTLDA VQFRQKCREY AAEQIQLQRR DFKRLGVIGD
160 170 180 190 200
WDAPYKTLDF RFEADEIRAL AKIVDKGHLI RGTKPVHWCF DCGSALAEAE
210 220 230 240 250
IEYTDKTSPM VDVAYPALDP SALAAVFNAT LPPDVQLAVP IWTTTPWTLP
260 270 280 290 300
ASLAISVGPT LDYVLVEGPT HSGQRRWLIL AEALAAKALA RYGIAELLIH
310 320 330 340 350
GSAKGAAMEQ HILAHPFYPD RTIPLLLGNH VSAEDGTGAV HTAPGHGQED
360 370 380 390 400
HQVFQQYGLL NRYSAAELNP VDARGVYLST TPPLGELTLA GLHIWKANPL
410 420 430 440 450
IVDALRLRGV LLAAAEMHHS YPHCWRHKTP IVFRATPQWF ISMEQAALRS
460 470 480 490 500
AALKAITHVT WYPQWGQARI LSMIENRPDW TISRQRTWGV PIPLFVHRHS
510 520 530 540 550
GAPHPRSAAL MRQIADRVEQ QGVDIWYSLD QTELLGTEAD QYEKITDILD
560 570 580 590 600
VWFDSGITHE AVLLERGLPK PADLYLEGAD QHRGWFQSSL LTGVAMDNAA
610 620 630 640 650
PYKQCLTHGF TVDQHGRKMS KSLGNGIEPQ DIIKTLGADI LRLWIASTDY
660 670 680 690 700
SNEMSLSQEI LKRTTDAYRR IRNTTRFLLG NLHGFDPTLH LVPLSDMIAL
710 720 730 740 750
DRWIVHRAFE LQQTIKAAYT RYDFAEIIQK ILNFCSVDLG SLYLDVTKDR
760 770 780 790 800
LYTMHENAPG RRSAQTAMYH LTAAFVRWIA PILSFTADEL WSYLPGDHAD
810 820 830 840 850
NVLFTTWYDG LAPLPPNAPL TAADFDKLLT LRDHVTKVLE PMRANGVIGA
860 870 880 890 900
ALEAEITVAA DADTAARWQP LTEELRFLFI TGDVTVTPAN TDGFFVSAQA
910 920 930 940
TTKAKCARCW HYRADIGAHP THPELCGRCI TNVDGPGEQR HWF
Length:943
Mass (Da):105,672
Last modified:April 8, 2008 - v1
Checksum:iA61A5E6210A0C42A
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000941 Genomic DNA. Translation: ACA12488.1.
RefSeqiWP_012337992.1. NC_010513.1.
YP_001776118.1. NC_010513.1.

Genome annotation databases

EnsemblBacteriaiACA12488; ACA12488; Xfasm12_1578.
GeneIDi6119406.
KEGGixfm:Xfasm12_1578.
PATRICi24139794. VBIXylFas124301_1844.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000941 Genomic DNA. Translation: ACA12488.1 .
RefSeqi WP_012337992.1. NC_010513.1.
YP_001776118.1. NC_010513.1.

3D structure databases

ProteinModelPortali B0U3Q9.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 405440.Xfasm12_1578.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACA12488 ; ACA12488 ; Xfasm12_1578 .
GeneIDi 6119406.
KEGGi xfm:Xfasm12_1578.
PATRICi 24139794. VBIXylFas124301_1844.

Phylogenomic databases

eggNOGi COG0060.
HOGENOMi HOG000246402.
KOi K01870.
OMAi KPVHWCL.
OrthoDBi EOG644ZM1.

Enzyme and pathway databases

BioCyci XFAS405440:GH0D-1613-MONOMER.

Family and domain databases

Gene3Di 1.10.730.10. 1 hit.
3.40.50.620. 2 hits.
3.90.740.10. 1 hit.
HAMAPi MF_02002. Ile_tRNA_synth_type1.
InterProi IPR001412. aa-tRNA-synth_I_CS.
IPR002300. aa-tRNA-synth_Ia.
IPR002301. Ile-tRNA-ligase.
IPR023585. Ile-tRNA-ligase_type1.
IPR014729. Rossmann-like_a/b/a_fold.
IPR009080. tRNAsynth_1a_anticodon-bd.
IPR013155. V/L/I-tRNA-synth_anticodon-bd.
IPR009008. Val/Leu/Ile-tRNA-synth_edit.
IPR010663. Znf_DNA_glyclase/IsotRNA_synth.
[Graphical view ]
PANTHERi PTHR11946:SF9. PTHR11946:SF9. 1 hit.
Pfami PF08264. Anticodon_1. 1 hit.
PF00133. tRNA-synt_1. 1 hit.
PF06827. zf-FPG_IleRS. 1 hit.
[Graphical view ]
PRINTSi PR00984. TRNASYNTHILE.
SUPFAMi SSF47323. SSF47323. 1 hit.
SSF50677. SSF50677. 1 hit.
TIGRFAMsi TIGR00392. ileS. 1 hit.
PROSITEi PS00178. AA_TRNA_LIGASE_I. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Whole genome sequences of two Xylella fastidiosa strains (M12 and M23) causing almond leaf scorch disease in California."
    Chen J., Xie G., Han S., Chertkov O., Sims D., Civerolo E.L.
    J. Bacteriol. 192:4534-4534(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: M12.

Entry informationi

Entry nameiSYI_XYLFM
AccessioniPrimary (citable) accession number: B0U3Q9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: April 8, 2008
Last modified: October 29, 2014
This is version 53 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. Aminoacyl-tRNA synthetases
    List of aminoacyl-tRNA synthetase entries
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3