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Protein

Isoleucine--tRNA ligase

Gene

ileS

Organism
Vesicomyosocius okutanii subsp. Calyptogena okutanii (strain HA)
Status
Reviewed-Annotation score: 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

Zn2+UniRule annotationNote: Binds 1 zinc ion per subunit.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei552 – 5521Aminoacyl-adenylateUniRule annotation
Binding sitei596 – 5961ATPUniRule annotation
Metal bindingi918 – 9181ZincUniRule annotation
Metal bindingi921 – 9211ZincUniRule annotation
Metal bindingi938 – 9381ZincUniRule annotation
Metal bindingi941 – 9411ZincUniRule annotation

GO - Molecular functioni

GO - Biological processi

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

BioCyciCVES412965:GHZZ-321-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:COSY_0322
OrganismiVesicomyosocius okutanii subsp. Calyptogena okutanii (strain HA)
Taxonomic identifieri412965 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriasulfur-oxidizing symbionts
ProteomesiUP000000247 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 955955Isoleucine--tRNA ligasePRO_1000022140Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi412965.COSY_0322.

Structurei

3D structure databases

ProteinModelPortaliA5CX61.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi58 – 6811"HIGH" regionAdd
BLAST
Motifi593 – 5975"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.
OMAiVLGDWDN.
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.
InterProiIPR002300. aa-tRNA-synth_Ia.
IPR002301. Ile-tRNA-ligase.
IPR023585. Ile-tRNA-ligase_type1.
IPR013155. M/V/L/I-tRNA-synth_anticd-bd.
IPR014729. Rossmann-like_a/b/a_fold.
IPR009080. tRNAsynth_1a_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. 2 hits.
SSF50677. SSF50677. 1 hit.
TIGRFAMsiTIGR00392. ileS. 1 hit.

Sequencei

Sequence statusi: Complete.

A5CX61-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSDYKSSLNL PSTQFSMKAN LANREGKFLK KWQNDRLYDQ IRKQNQGKPK
60 70 80 90 100
FVLHDGPIYA NGDIHIGHAV NKVLKDIIVK SKSLSGFDAP YVPGWDCHGL
110 120 130 140 150
PIELNVEKEY GKVGIKIDVN TFRYKCREYA DHQVMRQSQD FQRLGILSDW
160 170 180 190 200
DNPYLTKDFK YEADVVRALG QVVKNGHVYK GHKPLHWCTE CGSALAEAEV
210 220 230 240 250
EYKNKQSEAI DVKFRIIEDS VFNVKKPVSV VIWTTTPWTL PANEAVALHS
260 270 280 290 300
ELNYVLVDIG SEYLLLSQSL VVNSISRYDI KVTIGERMFS SSELEGLKVQ
310 320 330 340 350
HPFYDKQVPI ILGDHVTIDS GTGAVHIAPA HGQEDFIAGL KYNLPIDCPV
360 370 380 390 400
DAKGVFFKEI LLLGGQFIFK ANASVIRILK ETNTLVKHES LTHSYPHCWR
410 420 430 440 450
HKTPIIFRIT SQWFISMQQN GLRDIVNSEI QKVQWIPHWS KKRIELMVDN
460 470 480 490 500
RPDWCISRQR FWGVPITLFV HKKTGELHPN TQMLFVCIAN RIEQEGIEAW
510 520 530 540 550
FKSDTKDFIG DDVNDYDKIT DILDVWFDSG MSHFVVLKVR KELSNVADLY
560 570 580 590 600
LEGSDQHRGW FQSSLISSVA INKKAPYKNV LTHGFVVDKD GKKMSKSLGN
610 620 630 640 650
IISPQKIVNN VGADILRLWI ASTDYTGEMT VSDEILKRSA DSYRRIRNTM
660 670 680 690 700
RFMLANMNGF TQKNLVDTKA MLDLDRWIVA KTQKIQEAII ENYDTYQFHY
710 720 730 740 750
IVKSINNFCS NDLGGFYLDI IKDRQYTTQK DSPARRSAQT ALYHITQMMV
760 770 780 790 800
RWLSPILSFT SEEIWQELAP NKKSIFLQEW YLQVDTIDNV VFDDGIIYGT
810 820 830 840 850
MISSHISQEQ REGLEKSDDI FTSINIVRII SPTIRQAIEK LRKDKVLGAS
860 870 880 890 900
LEAEVDIYCN LKVKEKLSKF GEELRFMFIT SDVRLHSFEE KPNNAIEVDS
910 920 930 940 950
DVLQQVAIVV VKSEHSKCVR CWHHRKDVGS NNKYLELCCR CVENVDGDGE

VRKFA
Length:955
Mass (Da):109,700
Last modified:June 12, 2007 - v1
Checksum:i5D73688DC5DC10A2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP009247 Genomic DNA. Translation: BAF61447.1.
RefSeqiWP_011929717.1. NC_009465.1.

Genome annotation databases

EnsemblBacteriaiBAF61447; BAF61447; COSY_0322.
KEGGivok:COSY_0322.
PATRICi32020463. VBICanVes128383_0317.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP009247 Genomic DNA. Translation: BAF61447.1.
RefSeqiWP_011929717.1. NC_009465.1.

3D structure databases

ProteinModelPortaliA5CX61.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi412965.COSY_0322.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAF61447; BAF61447; COSY_0322.
KEGGivok:COSY_0322.
PATRICi32020463. VBICanVes128383_0317.

Phylogenomic databases

eggNOGiCOG0060.
HOGENOMiHOG000246402.
KOiK01870.
OMAiVLGDWDN.
OrthoDBiEOG644ZM1.

Enzyme and pathway databases

BioCyciCVES412965:GHZZ-321-MONOMER.

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.
InterProiIPR002300. aa-tRNA-synth_Ia.
IPR002301. Ile-tRNA-ligase.
IPR023585. Ile-tRNA-ligase_type1.
IPR013155. M/V/L/I-tRNA-synth_anticd-bd.
IPR014729. Rossmann-like_a/b/a_fold.
IPR009080. tRNAsynth_1a_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. 2 hits.
SSF50677. SSF50677. 1 hit.
TIGRFAMsiTIGR00392. ileS. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "Reduced genome of the thioautotrophic intracellular symbiont in a deep-sea clam, Calyptogena okutanii."
    Kuwahara H., Yoshida T., Takaki Y., Shimamura S., Nishi S., Harada M., Matsuyama K., Takishita K., Kawato M., Uematsu K., Fujiwara Y., Sato T., Kato C., Kitagawa M., Kato I., Maruyama T.
    Curr. Biol. 17:881-886(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: HA.

Entry informationi

Entry nameiSYI_VESOH
AccessioniPrimary (citable) accession number: A5CX61
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: June 12, 2007
Last modified: July 22, 2015
This is version 62 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

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 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.