Q5JJ31 (SYI_PYRKO) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended 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:	TK1748

Organism

Pyrococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Thermococcus kodakaraensis (strain KOD1)) [Reference proteome] [HAMAP]

Taxonomic identifier

69014 [NCBI]

Taxonomic lineage

cellular organisms › Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Thermococcus › Thermococcus kodakarensis

Protein attributes

Sequence length	1065 AA.
Sequence status	Complete.
Protein existence	Inferred 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_02003
Catalytic activity	ATP + L-isoleucine + tRNA(Ile) = AMP + diphosphate + L-isoleucyl-tRNA(Ile). HAMAP-Rule MF_02003
Cofactor	Zinc By similarity.
Subunit structure	Monomer By similarity.
Subcellular location	Cytoplasm By similarity.
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_02003
Sequence similarities	Belongs to the class-I aminoacyl-tRNA synthetase family. IleS type 2 subfamily.

Ontologies

Keywords
Biological process	Protein biosynthesis
Cellular component	Cytoplasm
Ligand	ATP-binding Metal-binding Nucleotide-binding Zinc
Molecular function	Aminoacyl-tRNA synthetase Ligase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	isoleucyl-tRNA aminoacylation Inferred from electronic annotation. Source: HAMAP regulation of translational fidelity Inferred from electronic annotation. Source: GOC
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	ATP binding Inferred from electronic annotation. Source: HAMAP aminoacyl-tRNA editing activity Inferred from electronic annotation. Source: InterPro isoleucine-tRNA ligase activity Inferred from electronic annotation. Source: HAMAP zinc ion binding Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1065	1065	Isoleucine--tRNA ligase HAMAP-Rule MF_02003		PRO_0000098591
Regions
	Motif	49 – 59	11	"HIGH" region HAMAP-Rule MF_02003
	Motif	625 – 629	5	"KMSKS" region HAMAP-Rule MF_02003
Sites
	Binding site	628	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q5JJ31 [UniParc]. Last modified February 15, 2005. Version 1. Checksum: 2BC6601CFF79D3A6	FASTA	1,065	125,512
	10 20 30 40 50 60 MIREPEFREY NPGQLEEKIE AFWKENNTYE KVKKLRENGP KYYFLDGPPY VSGAIHLGTA 70 80 90 100 110 120 WNKIIKDMII RFRSMQGYNV RRQPGFDMHG LPIEVKVEQA LKLKNKREIE TKIGVDNFIK 130 140 150 160 170 180 KCKEFALNNL KIMTEQFKQL GVWMDWDNPY MTIKNEYIES GWFTLKRAWE KGLLEKDKRV 190 200 210 220 230 240 LHWCPRCQTA LAEHEVRGEY KMRKDPSIYV KFPIEWKEKE YLLIWTTTPW TLPANLAVAA 250 260 270 280 290 300 HPEYEYAKVK VETENGEEYW IMAKALVERV LSEVGVKGEI VETFKGEELE GIRYTHVLLE 310 320 330 340 350 360 EYPAQKEFRE KYEWAHRVIL GEHVTLEDGT GLVHTAPGHG EEDFEVGQRY GLPVYSPVDD 370 380 390 400 410 420 AGRYTEGKWK GVYVKDADPE IIEYLKEKGY LVKAGEIEHK YPHCWRCKTP LIFRATDQWF 430 440 450 460 470 480 LKVSKVKDQI IKENDEKVTW YPEWVKVRYD NGVMNSGDWV ISRQRYWGIP LPIWESEDGE 490 500 510 520 530 540 YYVVGSFEEL VKLAVAIEVN GERIDLPEGY EEKLKIIEEK LGPEDLHRPY VDAFIIKVNG 550 560 570 580 590 600 KEMKRVKDVV DVWFDSGIAS WASLDYPRNK ELFEKLWPAD FIVEGEDQVT KWFYSQQAAS 610 620 630 640 650 660 VIAFDTVPYR AVAMHGYVLD EKGDKMSKSL GNIIRPEEVV QKEGRDPFRF YMLWATNPWE 670 680 690 700 710 720 NLRFSWKGLE QVKRMLNILW NVYVLSATYM SLDNFNPTKV NPEELPFREE DRWILSRVNS 730 740 750 760 770 780 LIGEVTDGIE TFRLTRATRG IYNFVVEDLS RWYIRLIRKR MWVEGDDPDK LAAYYTVWKV 790 800 810 820 830 840 FDVLLRLMAP FTPYIAEEIY QNLIRPFVGV ESVHMLDWPE ADEKAIDEEL EKEMEYARKI 850 860 870 880 890 900 VEAGSSARQK ARIKLRYPVR RIIIETEDET VKKAVERINR ILRDQLNAKE VVVGKVEREL 910 920 930 940 950 960 IIKPNFAKVG PEFKGDAKKV IAWISEHGRE LYEKGEMDVE IEGKTFHITR EHVTIEEKLP 970 980 990 1000 1010 1020 DFFVAEEFDG GRVFVDKTLT RELLAEGLAR EFVRRIQEMR KRLDLDVNDR IVVTIETTDE 1030 1040 1050 1060 NRELLQENLD YIMRETRAVE VRFEEAKGYV VEWPEVQAKI GIEKV

References

[1]

"Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes." Fukui T., Atomi H., Kanai T., Matsumi R., Fujiwara S., Imanaka T. Genome Res. 15:352-363(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC BAA-918 / JCM 12380 / KOD1.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AP006878 Genomic DNA. Translation: BAD85937.1.
RefSeq	YP_184161.1. NC_006624.1.
3D structure databases
ProteinModelPortal	Q5JJ31.
ModBase	Search...
Protein-protein interaction databases
STRING	69014.TK1748.
Proteomic databases
PRIDE	Q5JJ31.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	BAD85937; BAD85937; TK1748.
GeneID	3235480.
KEGG	tko:TK1748.
Phylogenomic databases
eggNOG	COG0060.
HOGENOM	HOG000246403.
KO	K01870.
OMA	WFYSQLG.
ProtClustDB	PRK06039.
Family and domain databases
Gene3D	3.40.50.620. 2 hits. 3.90.740.10. 1 hit.
HAMAP	MF_02003. Ile_tRNA_synth_type2.
InterPro	IPR001412. aa-tRNA-synth_I_CS. IPR002300. aa-tRNA-synth_Ia. IPR002301. Ile-tRNA-ligase. IPR023585. Ile-tRNA-ligase_type1. IPR023586. Ile-tRNA-ligase_type2. 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]
PANTHER	PTHR11946:SF9. PTHR11946:SF9. 1 hit.
Pfam	PF08264. Anticodon_1. 1 hit. PF00133. tRNA-synt_1. 1 hit. [Graphical view]
PRINTS	PR00984. TRNASYNTHILE.
SUPFAM	SSF47323. tRNAsyn_1a_bind. 1 hit. SSF50677. ValRS_IleRS_edit. 1 hit.
TIGRFAMs	TIGR00392. ileS. 1 hit.
PROSITE	PS00178. AA_TRNA_LIGASE_I. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

SYI_PYRKO

Accession

Primary (citable) accession number: Q5JJ31

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 20, 2005
Last sequence update:	February 15, 2005
Last modified:	May 1, 2013
This is version 65 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program