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Q6YR34

- SYI_ONYPE

UniProt

Q6YR34 - SYI_ONYPE

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Protein

Isoleucine--tRNA ligase

Gene

ileS

Organism
Onion yellows phytoplasma (strain OY-M)
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

Zn2+UniRule annotationNote: Binds 1 zinc ion per subunit.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei550 – 5501Aminoacyl-adenylateUniRule annotation
Binding sitei594 – 5941ATPUniRule annotation
Metal bindingi876 – 8761ZincUniRule annotation
Metal bindingi879 – 8791ZincUniRule annotation
Metal bindingi892 – 8921ZincUniRule annotation
Metal bindingi895 – 8951ZincUniRule 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

BioCyciMORG262768:GHF5-191-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:PAM_184
OrganismiOnion yellows phytoplasma (strain OY-M)
Taxonomic identifieri262768 [NCBI]
Taxonomic lineageiBacteriaTenericutesMollicutesAcholeplasmatalesAcholeplasmataceaeCandidatus PhytoplasmaCandidatus Phytoplasma asteris
ProteomesiUP000002523: 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 – 900900Isoleucine--tRNA ligasePRO_0000098433Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi262768.PAM_184.

Structurei

3D structure databases

ProteinModelPortaliQ6YR34.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi59 – 6911"HIGH" regionAdd
BLAST
Motifi591 – 5955"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.
OMAiKESHFDE.
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.

Q6YR34-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTTNYKTTLL MPKTDFPMKG NLGKNEINIQ KHWQKLDLYQ KKLQQNQDNN
60 70 80 90 100
PFILHDGPPY ANGNIHMGHA LNKILKDFIV RFRSMQGFYT PLIPGWDTHG
110 120 130 140 150
LPIEAAVLKK TSKNAFTRKP LLDKCQEFAL ENVNNQKHQF QRLGILGDWQ
160 170 180 190 200
NPYLTLDKTF VSDQVRIFGQ MVDKGLIFKA LKPIHWSPTL ESALAEAELE
210 220 230 240 250
YHNHQSPSVY VAFSMKKLDI FDNVALVIWT TTPWTLPANV AIAVHPEKEY
260 270 280 290 300
QLIEVLQKRY LVGTKNIPFL QKVFAWNKEN IKVVATFEGK TLEHLTYQNH
310 320 330 340 350
LVSKFGKIIL SQHVLDGEGT GLVHIAPGHG LDDFLVGQKY NLDVVCSIDK
360 370 380 390 400
KGMMTDVSKY QGLFYTKANE AIISDLEKDH SLLKADVILH SYPHDWRTKK
410 420 430 440 450
PVISLALPQW FVSIKKIKSL LLEETQKVKW IPRWGELKMT NMITNREDWN
460 470 480 490 500
ISRQRTWGVP IPIFYTETHQ PILDLKLINH VADLFEQHGM DIWYEWDVKK
510 520 530 540 550
LLPENYINPQ SPNNLFTKEL DIMDVWFDSG TSYSVFKKRN QVLQSDVYLE
560 570 580 590 600
GSDQYRGWFN SSLITSVATQ NQAPYKTVIT HGFVFDGEGK KMSKSLGNVI
610 620 630 640 650
DPLTVAEQKG ADIIRLWVAN TNYNLDVRIN PSILKQVEDL YRKIRNTFRF
660 670 680 690 700
MLGNLDNFKK DTNYIAFEQR TFIHQAMMLD FEEVLKNVLH SYDTYNFEGV
710 720 730 740 750
LRHLFPFITN KISAFYLDFA KDILYIEKED HKERKMIQST IYDLLLSLLQ
760 770 780 790 800
VLTPIIPHTT SEVYGFFPFA VEKDIYLEKM PQLKARPTSH LLLEYHKFLT
810 820 830 840 850
LRKNVLQYLE KARQSGLINS SLQAHITLSL TQEEMHALDV LQIKDQLHQL
860 870 880 890 900
FIVSKVTLQL KDTFDVKVAK ASGYACQRCW NVVITKPLTP LCTRCQNILK
Length:900
Mass (Da):104,373
Last modified:July 5, 2004 - v1
Checksum:i023BA5BF424BF031
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP006628 Genomic DNA. Translation: BAD04269.1.
RefSeqiNP_950436.1. NC_005303.2.
WP_011160559.1. NC_005303.2.

Genome annotation databases

EnsemblBacteriaiBAD04269; BAD04269; PAM_184.
GeneIDi2673552.
KEGGipoy:PAM_184.
PATRICi22809860. VBIOniYel86799_0253.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP006628 Genomic DNA. Translation: BAD04269.1 .
RefSeqi NP_950436.1. NC_005303.2.
WP_011160559.1. NC_005303.2.

3D structure databases

ProteinModelPortali Q6YR34.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 262768.PAM_184.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAD04269 ; BAD04269 ; PAM_184 .
GeneIDi 2673552.
KEGGi poy:PAM_184.
PATRICi 22809860. VBIOniYel86799_0253.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci MORG262768:GHF5-191-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. "Reductive evolution suggested from the complete genome sequence of a plant-pathogenic phytoplasma."
    Oshima K., Kakizawa S., Nishigawa H., Jung H.-Y., Wei W., Suzuki S., Arashida R., Nakata D., Miyata S., Ugaki M., Namba S.
    Nat. Genet. 36:27-29(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: OY-M.

Entry informationi

Entry nameiSYI_ONYPE
AccessioniPrimary (citable) accession number: Q6YR34
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: July 5, 2004
Last modified: November 26, 2014
This is version 77 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