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Q9XDB4

- SYI_FERPD

UniProt

Q9XDB4 - SYI_FERPD

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Protein

Isoleucine--tRNA ligase

Gene

ileS

Organism
Fervidobacterium pennivorans (strain DSM 9078 / Ven5)
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 bindingi880 – 8801ZincUniRule annotation
Metal bindingi883 – 8831ZincUniRule annotation
Metal bindingi900 – 9001ZincUniRule annotation
Metal bindingi903 – 9031ZincUniRule 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

BioCyciFPEN771875:GLDA-1791-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:Ferpe_1791
OrganismiFervidobacterium pennivorans (strain DSM 9078 / Ven5)
Taxonomic identifieri771875 [NCBI]
Taxonomic lineageiBacteriaThermotogaeThermotogalesThermotogaceaeFervidobacterium
ProteomesiUP000007384: 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 – 912912Isoleucine--tRNA ligasePRO_0000098387Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

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

KOiK01870.

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.

Q9XDB4-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MDYKATLNLP QTNFQMKANL VNKEPEMLKF WEEKEIYKKT LETRANAPTY
60 70 80 90 100
LLHDGPPYAN GDIHLGTAMN KILKDFVTRY KTMRGYRVPF VPGWDTHGLP
110 120 130 140 150
IEHRVTTSLG EEAKKKSPAE IRKLCKEFAL KYVDIQREEF KRLGVKGDWE
160 170 180 190 200
HPYITLDPDY EYHILDVFKT LVENGNVYRG NKPVYWCPTC RTALAEAEIE
210 220 230 240 250
YHDHESPSIY VKFQMVDKPD TYIVIWTTTP WTIPANVAIA LHPDYTYVKI
260 270 280 290 300
KVDEEYWIVA EGLLQKFAAD VGIDFEVVEK FVGKELEGKL TKHPLYDRTS
310 320 330 340 350
VVVLADYVTL EDGTGCVHTA PGHGEEDYQT GLKYNLPVLS PVDDEGRFTK
360 370 380 390 400
EAGKYEGLKI WDANKVIVED LKNNGSLIKA GKISHSYPHC WRCKGPVMFR
410 420 430 440 450
ATPQWFISVD KNNLRGKVLE EIKKVKWYPA WGETRITAMV QERPDWTISR
460 470 480 490 500
QRVWGVPIPA VKCKDCGEVT LEPKVIEHFA NIVKEKGTDA WFELDVNELI
510 520 530 540 550
PADFKCPACG SKNFEKTHDT LDVWIDSGCS WEAVIRSKGE RFPVDLYLEG
560 570 580 590 600
DDQHRGWFQS SIFLSTAKAG TAPFKAVVTH GFIKDEQGRK MSKSLGNVID
610 620 630 640 650
PMEIVNKYGA DILRLWVAST DFFDNIRVGK NIIEQQVEVY RKLRNTLRYL
660 670 680 690 700
LSNLYDFTEA DLLPYEKLLP LDKWALGRLQ KFIEQITQYY EGFEYSKVYN
710 720 730 740 750
ATVKYCTTEL SAVYLDILKD RLYVEAKDSI YRRSAQTALH YILEALIKIL
760 770 780 790 800
APIIPFTAEE AYQESHLKRY ESVHLEYWPE VRKEFIDEAL LEEFDHLLLI
810 820 830 840 850
RDDVLKALEN ARASDIIGHS LDAHVIIEAK NEELKNLLRK YESLLEEFFI
860 870 880 890 900
VSKVTLSENI SGLNGQFANV LVQRAEGQKC QRCWKYHPDT GKDLEHPETC
910
PRCSAVLRGE RK
Length:912
Mass (Da):105,259
Last modified:September 5, 2012 - v3
Checksum:iA0C8FA7C5CE20B7E
GO

Sequence cautioni

The sequence AAD30388.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti525 – 5251I → M in AAD30388. (PubMed:10224005)Curated

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF096862 Genomic DNA. Translation: AAD30388.1. Different initiation.
CP003260 Genomic DNA. Translation: AFG35844.1.
RefSeqiYP_005471963.1. NC_017095.1.

Genome annotation databases

EnsemblBacteriaiAFG35844; AFG35844; Ferpe_1791.
GeneIDi12058543.
KEGGifpe:Ferpe_1791.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF096862 Genomic DNA. Translation: AAD30388.1 . Different initiation.
CP003260 Genomic DNA. Translation: AFG35844.1 .
RefSeqi YP_005471963.1. NC_017095.1.

3D structure databases

ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AFG35844 ; AFG35844 ; Ferpe_1791 .
GeneIDi 12058543.
KEGGi fpe:Ferpe_1791.

Phylogenomic databases

KOi K01870.

Enzyme and pathway databases

BioCyci FPEN771875:GLDA-1791-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

« Hide 'large scale' publications
  1. "Pullulanase type I from fervidobacterium pennavorans ven5: cloning, sequencing, and expression of the gene and biochemical characterization of the recombinant enzyme."
    Bertoldo C., Duffner F., Jorgensen P.L., Antranikian G.
    Appl. Environ. Microbiol. 65:2084-2091(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: DSM 9078 / Ven5.
  2. "Complete sequence of Fervidobacterium pennivorans DSM 9078."
    Lucas S., Han J., Lapidus A., Cheng J.-F., Goodwin L., Pitluck S., Peters L., Ovchinnikova G., Lu M., Detter J.C., Han C., Tapia R., Land M., Hauser L., Kyrpides N., Ivanova N., Pagani I., Noll K.M., Woyke T.
    Submitted (MAR-2012) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 9078 / Ven5.

Entry informationi

Entry nameiSYI_FERPD
AccessioniPrimary (citable) accession number: Q9XDB4
Secondary accession number(s): H9UEA1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: September 5, 2012
Last modified: October 29, 2014
This is version 87 of the entry and version 3 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