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Protein

Isoleucine--tRNA ligase

Gene

ileS

Organism
Desulfovibrio vulgaris (strain Miyazaki F / DSM 19637)
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 sitei565 – 5651Aminoacyl-adenylateUniRule annotation
Binding sitei609 – 6091ATPUniRule annotation
Metal bindingi905 – 9051ZincUniRule annotation
Metal bindingi908 – 9081ZincUniRule annotation
Metal bindingi925 – 9251ZincUniRule annotation
Metal bindingi928 – 9281ZincUniRule 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

BioCyciDVUL883:GCJ5-281-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:DvMF_0266
OrganismiDesulfovibrio vulgaris (strain Miyazaki F / DSM 19637)
Taxonomic identifieri883 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
ProteomesiUP000001361 Componenti: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

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

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 938938Isoleucine--tRNA ligasePRO_1000189152Add
BLAST

Proteomic databases

PRIDEiB8DPD6.

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi883.DvMF_0266.

Structurei

3D structure databases

ProteinModelPortaliB8DPD6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi58 – 6811"HIGH" regionAdd
BLAST
Motifi606 – 6105"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.
InterProiIPR001412. aa-tRNA-synth_I_CS.
IPR002300. 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.
PROSITEiPS00178. AA_TRNA_LIGASE_I. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B8DPD6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSDYKKTLHL PDTKFPMKAN LTQREPEMLK FWEGIDAYAA MAQASGQKGQ
60 70 80 90 100
YVLHDGPPYA NGHIHLGTAL NKILKDMVVK SRNMQGYAAR YVPGWDCHGL
110 120 130 140 150
PIEHKVEQEL GEKKKELPAH VVRKRCRQYA EKYLDIQRKE FKRLGVLGAW
160 170 180 190 200
DKPYMTMDPA YESATARELG NFVAAGNVVR SKKPIYWCCS CQTALAEAEV
210 220 230 240 250
EYYDHTSPSI FVRFPLRDPK VADVLNVDPA SAWIVIWTTT PWTLPDNMAV
260 270 280 290 300
AVHPDHDYAV VRHDGAHYVL AAALVESSAK TFGWENCEVV STVPGAKLEG
310 320 330 340 350
LVATHPFYDR PSPVVLADYV VLDSGTGCVH TAPGHGREDY ETGLRYGLEI
360 370 380 390 400
LSPLNDEGRF LDSVPFFAGL TVFEANPKVI EKLREVGNLL AERKISHSYP
410 420 430 440 450
HCWRCKKPVI FRATTQWFIA MEKNDLRARA LSAIRNDVRW IPAWGEERIH
460 470 480 490 500
NMIEFRPDWC ISRQRTWGVP IIALLCEGCG EAWNDAAWMR DIADRFAKHP
510 520 530 540 550
TGCDYWYETP LEGIVPAGLA CPHCGGNHWK KETDILDVWF DSGTSFSAVL
560 570 580 590 600
EQRGDTAFPA DLYLEGSDQH RGWFHSSLLA SMGTRGVPPY RAVLTHGYVV
610 620 630 640 650
DGEGRKMSKS IGNVIAPQEI IDKYGAEILR LWVASVDYRE DIRISDEILS
660 670 680 690 700
RLVDAYRRIR NTCRYLLGNI DDLTPEEIVP FSVMDPLDRY ALDIVTDAHA
710 720 730 740 750
RIQEAYSEFE FHKVFHTLHN LCVTDLSAFY LDVLKDRLYA SAKDSPERRS
760 770 780 790 800
AQTALLHILL VLVRDMAPVL SFTAEEVFRH IPEALRPAAA TVFALRGSDT
810 820 830 840 850
PLYNVSSDES ERWEAVLAVR SEVTKAIEPL RKAGTVGHSL DTHVTLYADH
860 870 880 890 900
KLADLLRATG TDLRAVFIVS KLNIAPLEDA PQDAFASDEV KGLRIGVAKA
910 920 930
PGAKCERCWI YHEELGADPG YPGACARCTT VLRTSGAE
Length:938
Mass (Da):105,282
Last modified:March 2, 2009 - v1
Checksum:i2B910B49EA2CFE00
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001197 Genomic DNA. Translation: ACL07223.1.
RefSeqiWP_012611417.1. NC_011769.1.
YP_002434691.1. NC_011769.1.

Genome annotation databases

EnsemblBacteriaiACL07223; ACL07223; DvMF_0266.
KEGGidvm:DvMF_0266.
PATRICi21770443. VBIDesVul86729_0276.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001197 Genomic DNA. Translation: ACL07223.1.
RefSeqiWP_012611417.1. NC_011769.1.
YP_002434691.1. NC_011769.1.

3D structure databases

ProteinModelPortaliB8DPD6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi883.DvMF_0266.

Proteomic databases

PRIDEiB8DPD6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACL07223; ACL07223; DvMF_0266.
KEGGidvm:DvMF_0266.
PATRICi21770443. VBIDesVul86729_0276.

Phylogenomic databases

eggNOGiCOG0060.
HOGENOMiHOG000246402.
KOiK01870.
OMAiVLGDWDN.
OrthoDBiEOG644ZM1.

Enzyme and pathway databases

BioCyciDVUL883:GCJ5-281-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.
InterProiIPR001412. aa-tRNA-synth_I_CS.
IPR002300. 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.
PROSITEiPS00178. AA_TRNA_LIGASE_I. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete sequence of Desulfovibrio vulgaris str. 'Miyazaki F'."
    Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Sims D., Brettin T., Detter J.C., Han C., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Hazen T.C., Richardson P.
    Submitted (SEP-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Miyazaki F / DSM 19637.

Entry informationi

Entry nameiSYI_DESVM
AccessioniPrimary (citable) accession number: B8DPD6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 27, 2009
Last sequence update: March 2, 2009
Last modified: March 31, 2015
This is version 48 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.