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B3DYQ6

- SYI_METI4

UniProt

B3DYQ6 - SYI_METI4

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Protein

Isoleucine--tRNA ligase

Gene

ileS

Organism
Methylacidiphilum infernorum (isolate V4) (Methylokorus infernorum (strain V4))
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 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

  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

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: 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 – 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.
KOiK01870.
OMAiTALWQIT.
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.
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.
[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:
EMBL
GenBank
DDBJ
Links Updated
CP000975 Genomic DNA. Translation: ACD82428.1.
RefSeqiYP_001939026.1. NC_010794.1.

Genome annotation databases

EnsemblBacteriaiACD82428; ACD82428; Minf_0370.
GeneIDi6351287.
KEGGimin:Minf_0370.
PATRICi22489765. VBIMetInf111569_0389.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000975 Genomic DNA. Translation: ACD82428.1 .
RefSeqi YP_001939026.1. NC_010794.1.

3D structure databases

ProteinModelPortali B3DYQ6.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 481448.Minf_0370.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACD82428 ; ACD82428 ; Minf_0370 .
GeneIDi 6351287.
KEGGi min:Minf_0370.
PATRICi 22489765. VBIMetInf111569_0389.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci MINF481448:GJEI-377-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 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.
[Graphical view ]
PANTHERi PTHR11946:SF9. PTHR11946:SF9. 1 hit.
Pfami PF08264. Anticodon_1. 1 hit.
PF00133. tRNA-synt_1. 1 hit.
[Graphical view ]
PRINTSi PR00984. TRNASYNTHILE.
SUPFAMi SSF47323. SSF47323. 1 hit.
SSF50677. SSF50677. 1 hit.
TIGRFAMsi TIGR00392. ileS. 1 hit.
ProtoNeti Search...

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: October 29, 2014
This is version 49 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