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Protein

Isoleucine--tRNA ligase

Gene

ileS

Organism
Methylacidiphilum infernorum (isolate V4) (Methylokorus infernorum (strain V4))
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 sitei549 – 5491Aminoacyl-adenylateUniRule annotation
Binding sitei593 – 5931ATPUniRule annotation
Metal bindingi867 – 8671ZincUniRule annotation
Metal bindingi870 – 8701ZincUniRule annotation
Metal bindingi889 – 8891ZincUniRule annotation
Metal bindingi892 – 8921ZincUniRule 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

BioCyciMINF481448:GJEI-377-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:Minf_0370
OrganismiMethylacidiphilum infernorum (isolate V4) (Methylokorus infernorum (strain V4))
Taxonomic identifieri481448 [NCBI]
Taxonomic lineageiBacteriaVerrucomicrobiaunclassified VerrucomicrobiaMethylacidiphilalesMethylacidiphilaceaeMethylacidiphilum
ProteomesiUP000009149 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 – 907907Isoleucine--tRNA ligasePRO_1000216241Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi481448.Minf_0370.

Structurei

3D structure databases

ProteinModelPortaliB3DYQ6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi57 – 6711"HIGH" regionAdd
BLAST
Motifi590 – 5945"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.
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.
[Graphical view]
PANTHERiPTHR11946:SF9. PTHR11946:SF9. 1 hit.
PfamiPF08264. Anticodon_1. 1 hit.
PF00133. tRNA-synt_1. 1 hit.
[Graphical view]
PRINTSiPR00984. TRNASYNTHILE.
SUPFAMiSSF47323. SSF47323. 1 hit.
SSF50677. SSF50677. 1 hit.
TIGRFAMsiTIGR00392. ileS. 1 hit.

Sequencei

Sequence statusi: Complete.

B3DYQ6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDYSLTVLLP KTDFPMKANL PQREPHWIEV WEKEKVYSTL LEKRKNCPQF
60 70 80 90 100
ILHDGPPFAN GKAHMGSGLN KILKDIVLKS RNMLGFQCPY IPGWDCHGLP
110 120 130 140 150
IEHKVMSEYP ALAADPLSIR NKCKEYARYW IEIQKEQFRR LGILGSWDNP
160 170 180 190 200
YITMDPGYEA AELRLFAELV EKKWVYRGLR PVFWSVGCRT ALAEAEIEYQ
210 220 230 240 250
KKEDIAIYVE FPVGEEELKK AGLPQGTSFL AWTTTPWTLP ANLALAVSPD
260 270 280 290 300
LSYELRQVGG KKFIVAGKLA ESIPGFSHSV VLLSFPSGQN LEGLKYNHPL
310 320 330 340 350
LPREGVVYTA DFVSGETGSG IVHIAPGHGM EDYQLGMVHG LEVYSPVDDQ
360 370 380 390 400
GRFTKQCGIE KIVGLSVFEA NSILCAMLKE KGLLWAKYPY VHDYPFCWRS
410 420 430 440 450
KTPIIFRSVP QWFIAIEAFK SLALKEIERV NWIPSRGENR IKGAVESRKD
460 470 480 490 500
WCISRQRYWG VPIPAFYKKS GEAILDPSII RRFADKVEEE GTDLWFRLES
510 520 530 540 550
KELCQLLGLA PSEDLVKGLD TLDVWIDSGS SHYSVLKPRG EDPADLYLEG
560 570 580 590 600
SDQHRGWFQS SLLLSVASKG KAPYKSVLTH GFVVDLDGKK LSKSSGARDL
610 620 630 640 650
SEQIQTYGAD LLRLWVASEE YAEDVPFSKE IFSRLSDSYR LIRNSLRILL
660 670 680 690 700
GNLHDFNPQE QSLPDDRLRE IDRYFELCVN KLVKKTKAFY ENYEFSQVYQ
710 720 730 740 750
ALTRFCSVEL SSFYIDILKD RLYCDGQNWL SRRSAQTVLY RTFECLVKLL
760 770 780 790 800
APILPFTTEE AWRASGKTSS IHLELFPEER EIKEEEKLLK RWEKILQLRD
810 820 830 840 850
LANRELEKAR KQKMIGKNLE AKLILFTDDF EAEDTALLTE VFLVSQLEII
860 870 880 890 900
RSSKTEILVE KALGKKCPRC WKFSLFAQSN SDPQYPHVCP RCLKVLKGLP

ESFLVSD
Length:907
Mass (Da):103,868
Last modified:July 22, 2008 - v1
Checksum:i74707C11A679ECDF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000975 Genomic DNA. Translation: ACD82428.1.

Genome annotation databases

EnsemblBacteriaiACD82428; ACD82428; Minf_0370.
PATRICi22489765. VBIMetInf111569_0389.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000975 Genomic DNA. Translation: ACD82428.1.

3D structure databases

ProteinModelPortaliB3DYQ6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi481448.Minf_0370.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACD82428; ACD82428; Minf_0370.
PATRICi22489765. VBIMetInf111569_0389.

Phylogenomic databases

eggNOGiCOG0060.
HOGENOMiHOG000246402.
OMAiVLGDWDN.
OrthoDBiEOG644ZM1.

Enzyme and pathway databases

BioCyciMINF481448:GJEI-377-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.
[Graphical view]
PANTHERiPTHR11946:SF9. PTHR11946:SF9. 1 hit.
PfamiPF08264. Anticodon_1. 1 hit.
PF00133. tRNA-synt_1. 1 hit.
[Graphical view]
PRINTSiPR00984. TRNASYNTHILE.
SUPFAMiSSF47323. SSF47323. 1 hit.
SSF50677. SSF50677. 1 hit.
TIGRFAMsiTIGR00392. ileS. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "Complete genome sequence of the extremely acidophilic methanotroph isolate V4, Methylacidiphilum infernorum, a representative of the bacterial phylum Verrucomicrobia."
    Hou S., Makarova K.S., Saw J.H., Senin P., Ly B.V., Zhou Z., Ren Y., Wang J., Galperin M.Y., Omelchenko M.V., Wolf Y.I., Yutin N., Koonin E.V., Stott M.B., Mountain B.W., Crowe M.A., Smirnova A.V., Dunfield P.F.
    , Feng L., Wang L., Alam M.
    Biol. Direct 3:26-26(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Isolate V4.

Entry informationi

Entry nameiSYI_METI4
AccessioniPrimary (citable) accession number: B3DYQ6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 22, 2009
Last sequence update: July 22, 2008
Last modified: July 22, 2015
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, Reference 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.