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A1VCU3

- SYI_DESVV

UniProt

A1VCU3 - SYI_DESVV

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Protein

Isoleucine--tRNA ligase

Gene

ileS

Organism
Desulfovibrio vulgaris subsp. vulgaris (strain DP4)
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 sitei566 – 5661Aminoacyl-adenylateUniRule annotation
Binding sitei610 – 6101ATPUniRule annotation
Metal bindingi906 – 9061ZincUniRule annotation
Metal bindingi909 – 9091ZincUniRule annotation
Metal bindingi926 – 9261ZincUniRule annotation
Metal bindingi929 – 9291ZincUniRule 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

BioCyciDVUL391774:GHS0-1283-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:Dvul_1240
OrganismiDesulfovibrio vulgaris subsp. vulgaris (strain DP4)
Taxonomic identifieri391774 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
ProteomesiUP000009173: 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 – 938938Isoleucine--tRNA ligasePRO_1000070886Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi391774.Dvul_1240.

Structurei

3D structure databases

ProteinModelPortaliA1VCU3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi58 – 6811"HIGH" regionAdd
BLAST
Motifi607 – 6115"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.
OMAiKPVHWCL.
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.
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.
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. 1 hit.
SSF50677. SSF50677. 1 hit.
TIGRFAMsiTIGR00392. ileS. 1 hit.
PROSITEiPS00178. AA_TRNA_LIGASE_I. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A1VCU3-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSDYKKTLQL PETKFPMKAN LTQREPEMLR KWEKDDAYGA MVRASGQQGT
60 70 80 90 100
YVLHDGPPYA NGNIHMGHAL NKILKDIIVK SRNLQGFKAE YVPGWDCHGL
110 120 130 140 150
PIELKVEHEL GEKKRTMPAH AVRKRCRQYA EKYLDIQRKE FKRLGVFGAW
160 170 180 190 200
DKPYVTMHPS YEAATARELG NFAAKGGLVR SKKPIYWCCS CQTALAEAEV
210 220 230 240 250
EYHDHTSPSV HVRFPLRDPR VAEVLPGVDP AHAYIVIWTT TPWTLPDNMA
260 270 280 290 300
VAVHPDFDYV VVRHGGDFHI VAEGLLEACL KAFKWDEHEV VARIGGRALE
310 320 330 340 350
GLKATHPFYD RPSPIVLADY VTLESGTGCV HTAPGHGRED YETGLRYGLD
360 370 380 390 400
IYSPLTDEGR YLDCVEFFAG MTIFEANPKV IEKLREVGNL LAEGRITHSY
410 420 430 440 450
PHCWRCKKPV IFRATTQWFI AMERNDLRQK ALDAIRDDVR WIPSWGQERI
460 470 480 490 500
HNMIEFRPDW CISRQRMWGV PIVALLCEDC GEAWNDADWM RDIAERFAKH
510 520 530 540 550
ATGCDYWYET DLSDIVPAGL RCPKCGGDHW KKETDILDVW FDSGTSFAAV
560 570 580 590 600
VEQREECGFP ADLYLEGSDQ HRGWFHSSLL ASIGTRGVPP YRSVLTHGYV
610 620 630 640 650
VDGDGRKMSK SVGNVVAPQE IIDKHGAEVL RLWVASVDYR EDIRISEEIL
660 670 680 690 700
NRLVDAYRRI RNTCRYLLGN ISDLTPETMV PFEAMDPLDR FALDLASRAH
710 720 730 740 750
ERIQDAYTEY EFHKVFHTLH NLCVTDLSAF YLDILKDRLY SSAADSHARR
760 770 780 790 800
SAQTALYRIL MLMVRDMAPV LSFTAEEVFG YVPAALRPDV ISVFALPATD
810 820 830 840 850
APAFTLDTTS RAAWEKLLAV RSETTKAIEP LRKSGEVGHS LDTHVTLFAD
860 870 880 890 900
PSLKATLEGL GSDLRAMFIV SRLEVMNLAD APADAWTSEE LPELRVAVRK
910 920 930
AEGEKCERCW IISADLGTDA AHPTLCPRCT AVLTGTGA
Length:938
Mass (Da):105,975
Last modified:February 6, 2007 - v1
Checksum:i4B531856C7308EFE
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000527 Genomic DNA. Translation: ABM28259.1.
RefSeqiWP_011792149.1. NC_008751.1.
YP_966686.1. NC_008751.1.

Genome annotation databases

EnsemblBacteriaiABM28259; ABM28259; Dvul_1240.
GeneIDi4663467.
KEGGidvl:Dvul_1240.
PATRICi21766305. VBIDesVul62463_1438.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000527 Genomic DNA. Translation: ABM28259.1 .
RefSeqi WP_011792149.1. NC_008751.1.
YP_966686.1. NC_008751.1.

3D structure databases

ProteinModelPortali A1VCU3.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 391774.Dvul_1240.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABM28259 ; ABM28259 ; Dvul_1240 .
GeneIDi 4663467.
KEGGi dvl:Dvul_1240.
PATRICi 21766305. VBIDesVul62463_1438.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci DVUL391774:GHS0-1283-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 IPR001412. 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.
IPR010663. Znf_DNA_glyclase/IsotRNA_synth.
[Graphical view ]
PANTHERi PTHR11946:SF9. PTHR11946:SF9. 1 hit.
Pfami PF08264. Anticodon_1. 1 hit.
PF00133. tRNA-synt_1. 1 hit.
PF06827. zf-FPG_IleRS. 1 hit.
[Graphical view ]
PRINTSi PR00984. TRNASYNTHILE.
SUPFAMi SSF47323. SSF47323. 1 hit.
SSF50677. SSF50677. 1 hit.
TIGRFAMsi TIGR00392. ileS. 1 hit.
PROSITEi PS00178. AA_TRNA_LIGASE_I. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DP4.

Entry informationi

Entry nameiSYI_DESVV
AccessioniPrimary (citable) accession number: A1VCU3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: February 6, 2007
Last modified: October 29, 2014
This is version 64 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