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B8DPD6 (SYI_DESVM) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 41. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Isoleucine--tRNA ligase

EC=6.1.1.5
Alternative name(s):
Isoleucyl-tRNA synthetase
Short name=IleRS
Gene names
Name:ileS
Ordered Locus Names:DvMF_0266
OrganismDesulfovibrio vulgaris (strain Miyazaki F / DSM 19637) [Complete proteome] [HAMAP]
Taxonomic identifier883 [NCBI]
Taxonomic lineageBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio

Protein attributes

Sequence length938 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

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) By similarity. HAMAP-Rule MF_02002

Catalytic activity

ATP + L-isoleucine + tRNA(Ile) = AMP + diphosphate + L-isoleucyl-tRNA(Ile). HAMAP-Rule MF_02002

Cofactor

Binds 1 zinc ion per subunit By similarity. HAMAP-Rule MF_02002

Subunit structure

Monomer By similarity. HAMAP-Rule MF_02002

Subcellular location

Cytoplasm By similarity HAMAP-Rule MF_02002.

Domain

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)) By similarity. HAMAP-Rule MF_02002

Sequence similarities

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

Ontologies

Keywords
   Biological processProtein biosynthesis
   Cellular componentCytoplasm
   LigandATP-binding
Metal-binding
Nucleotide-binding
Zinc
   Molecular functionAminoacyl-tRNA synthetase
Ligase
   Technical termComplete proteome
Gene Ontology (GO)
   Biological_processisoleucyl-tRNA aminoacylation

Inferred from electronic annotation. Source: UniProtKB-HAMAP

   Cellular_componentcytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

   Molecular_functionATP binding

Inferred from electronic annotation. Source: UniProtKB-HAMAP

aminoacyl-tRNA editing activity

Inferred from electronic annotation. Source: InterPro

isoleucine-tRNA ligase activity

Inferred from electronic annotation. Source: UniProtKB-HAMAP

zinc ion binding

Inferred from electronic annotation. Source: UniProtKB-HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 938938Isoleucine--tRNA ligase HAMAP-Rule MF_02002
PRO_1000189152

Regions

Motif58 – 6811"HIGH" region HAMAP-Rule MF_02002
Motif606 – 6105"KMSKS" region HAMAP-Rule MF_02002

Sites

Metal binding9051Zinc By similarity
Metal binding9081Zinc By similarity
Metal binding9251Zinc By similarity
Metal binding9281Zinc By similarity
Binding site5651Aminoacyl-adenylate By similarity
Binding site6091ATP By similarity

Sequences

Sequence LengthMass (Da)Tools
B8DPD6 [UniParc].

Last modified March 3, 2009. Version 1.
Checksum: 2B910B49EA2CFE00

FASTA938105,282
        10         20         30         40         50         60 
MSDYKKTLHL PDTKFPMKAN LTQREPEMLK FWEGIDAYAA MAQASGQKGQ YVLHDGPPYA 

        70         80         90        100        110        120 
NGHIHLGTAL NKILKDMVVK SRNMQGYAAR YVPGWDCHGL PIEHKVEQEL GEKKKELPAH 

       130        140        150        160        170        180 
VVRKRCRQYA EKYLDIQRKE FKRLGVLGAW DKPYMTMDPA YESATARELG NFVAAGNVVR 

       190        200        210        220        230        240 
SKKPIYWCCS CQTALAEAEV EYYDHTSPSI FVRFPLRDPK VADVLNVDPA SAWIVIWTTT 

       250        260        270        280        290        300 
PWTLPDNMAV AVHPDHDYAV VRHDGAHYVL AAALVESSAK TFGWENCEVV STVPGAKLEG 

       310        320        330        340        350        360 
LVATHPFYDR PSPVVLADYV VLDSGTGCVH TAPGHGREDY ETGLRYGLEI LSPLNDEGRF 

       370        380        390        400        410        420 
LDSVPFFAGL TVFEANPKVI EKLREVGNLL AERKISHSYP HCWRCKKPVI FRATTQWFIA 

       430        440        450        460        470        480 
MEKNDLRARA LSAIRNDVRW IPAWGEERIH NMIEFRPDWC ISRQRTWGVP IIALLCEGCG 

       490        500        510        520        530        540 
EAWNDAAWMR DIADRFAKHP TGCDYWYETP LEGIVPAGLA CPHCGGNHWK KETDILDVWF 

       550        560        570        580        590        600 
DSGTSFSAVL EQRGDTAFPA DLYLEGSDQH RGWFHSSLLA SMGTRGVPPY RAVLTHGYVV 

       610        620        630        640        650        660 
DGEGRKMSKS IGNVIAPQEI IDKYGAEILR LWVASVDYRE DIRISDEILS RLVDAYRRIR 

       670        680        690        700        710        720 
NTCRYLLGNI DDLTPEEIVP FSVMDPLDRY ALDIVTDAHA RIQEAYSEFE FHKVFHTLHN 

       730        740        750        760        770        780 
LCVTDLSAFY LDVLKDRLYA SAKDSPERRS AQTALLHILL VLVRDMAPVL SFTAEEVFRH 

       790        800        810        820        830        840 
IPEALRPAAA TVFALRGSDT PLYNVSSDES ERWEAVLAVR SEVTKAIEPL RKAGTVGHSL 

       850        860        870        880        890        900 
DTHVTLYADH KLADLLRATG TDLRAVFIVS KLNIAPLEDA PQDAFASDEV KGLRIGVAKA 

       910        920        930 
PGAKCERCWI YHEELGADPG YPGACARCTT VLRTSGAE 

« Hide

References

[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 (OCT-2008) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: Miyazaki F / DSM 19637.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP001197 Genomic DNA. Translation: ACL07223.1.
RefSeqYP_002434691.1. NC_011769.1.

3D structure databases

ProteinModelPortalB8DPD6.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING883.DvMF_0266.

Proteomic databases

PRIDEB8DPD6.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACL07223; ACL07223; DvMF_0266.
GeneID7172148.
KEGGdvm:DvMF_0266.
PATRIC21770443. VBIDesVul86729_0276.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0060.
HOGENOMHOG000246402.
KOK01870.
OMAERLMLHQ.
OrthoDBEOG644ZM1.

Enzyme and pathway databases

BioCycDVUL883:GCJ5-281-MONOMER.

Family and domain databases

Gene3D1.10.730.10. 1 hit.
3.40.50.620. 2 hits.
3.90.740.10. 1 hit.
HAMAPMF_02002. Ile_tRNA_synth_type1.
InterProIPR001412. 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.
[Graphical view]
PANTHERPTHR11946:SF9. PTHR11946:SF9. 1 hit.
PfamPF08264. Anticodon_1. 1 hit.
PF00133. tRNA-synt_1. 1 hit.
[Graphical view]
PRINTSPR00984. TRNASYNTHILE.
SUPFAMSSF47323. SSF47323. 1 hit.
SSF50677. SSF50677. 1 hit.
TIGRFAMsTIGR00392. ileS. 1 hit.
PROSITEPS00178. AA_TRNA_LIGASE_I. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameSYI_DESVM
AccessionPrimary (citable) accession number: B8DPD6
Entry history
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 3, 2009
Last modified: May 14, 2014
This is version 41 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Aminoacyl-tRNA synthetases

List of aminoacyl-tRNA synthetase entries