P28354 (SYK1_SALTY) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Lysine--tRNA ligase
EC=6.1.1.6

Alternative name(s):
Lysyl-tRNA synthetase
Short name=LysRS

Gene names

Name:	lysS
Synonyms:	herC
Ordered Locus Names:	STM3040

Organism

Salmonella typhimurium

Taxonomic identifier

90371 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Salmonella

Protein attributes

Sequence length	505 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology

General annotation (Comments)

Catalytic activity	ATP + L-lysine + tRNA(Lys) = AMP + diphosphate + L-lysyl-tRNA(Lys). HAMAP MF_00252
Cofactor	Binds 3 magnesium ions per subunit By similarity. HAMAP MF_00252
Subunit structure	Homodimer.
Subcellular location	Cytoplasm HAMAP MF_00252.
Sequence similarities	Belongs to the class-II aminoacyl-tRNA synthetase family.

Ontologies

Keywords
Biological process	Protein biosynthesis
Cellular component	Cytoplasm
Ligand	ATP-binding Magnesium Metal-binding Nucleotide-binding
Molecular function	Aminoacyl-tRNA synthetase Ligase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	lysyl-tRNA aminoacylation Inferred from electronic annotation. Source: InterPro
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW lysine-tRNA ligase activity Inferred from electronic annotation. Source: EC metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW nucleic acid binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Initiator methionine	1	1	Removed By similarity
	Chain	2 – 505	504	Lysine--tRNA ligase HAMAP MF_00252		PRO_0000152626
Sites
	Metal binding	415	1	Magnesium 1 By similarity
	Metal binding	422	1	Magnesium 1 By similarity
	Metal binding	422	1	Magnesium 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	P28354 [UniParc]. Last modified January 23, 2007. Version 3. Checksum: 48EBE562C708F96F	FASTA	505	57,575
	10 20 30 40 50 60 MSEQNAQGAD EVVDLNNEMK ARREKLAALR EQGIPFPNDF RRDRTSDQLH AEFDAKEAEE 70 80 90 100 110 120 LEALNIEVSV AGRMMTRRIM GKASFVTLQD VGGRIQLYVA RDDLPEGVYN EQFKKWDLGD 130 140 150 160 170 180 ILGAKGKLFK TKTGELSIHC TELRLLTKAL RPLPDKFHGL QDQEARYRQR YLDLISNDES 190 200 210 220 230 240 RNTFKTRSKI LAGIRQFMVA RGFMEVETPM MQVIPGGASA RPFITHHNAL DLDMYLRIAP 250 260 270 280 290 300 ELYLKRLVVG GFERVFEINR NFRNEGISVR HNPEFTMMEL YMAYADYKDL IELTESLFRT 310 320 330 340 350 360 LAQDVLGTTQ VPYGDEVFDF GKPFEKLTMR EAIKKYRPET DMADLDNFDS AKAIAESIGI 370 380 390 400 410 420 HVEKSWGLGR IVTEIFDEVA EAHLIQPTFI TEYPAEVSPL ARRNDVNPEI TDRFEFFIGG 430 440 450 460 470 480 REIGNGFSEL NDAEDQAQRF LDQVNAKAAG DDEAMFYDED YVTALEHGLP PTAGLGIGID 490 500 RMVMLFTNSH TIRDVILFPA MRPVK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Complete genome sequence of Salmonella enterica serovar Typhimurium LT2." McClelland M., Sanderson K.E., Spieth J., Clifton S.W., Latreille P., Courtney L., Porwollik S., Ali J., Dante M., Du F., Hou S., Layman D., Leonard S., Nguyen C., Scott K., Holmes A., Grewal N., Mulvaney E. , Ryan E., Sun H., Florea L., Miller W., Stoneking T., Nhan M., Waterston R., Wilson R.K. Nature 413:852-856(2001) [PubMed: 11677609] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: LT2 / SGSC1412 / ATCC 700720.
[2]	"Autogenous suppression of an opal mutation in the gene encoding peptide chain release factor 2." Kawakami K., Nakamura Y. Proc. Natl. Acad. Sci. U.S.A. 87:8432-8436(1990) [PubMed: 2236050] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-31.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE006468 Genomic DNA. Translation: AAL21915.1. M38590 Genomic DNA. Translation: AAA72915.1.
RefSeq	NP_461956.1. NC_003197.1.
3D structure databases
ProteinModelPortal	P28354.
SMR	P28354. Positions 12-503.
ModBase	Search...
Proteomic databases
PRIDE	P28354.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	1254563.
GenomeReviews	Gene locus STM3040 in contig AE006468_GR.
KEGG	stm:STM3040.
PATRIC	32384823. VBISalEnt20916_3220.
Phylogenomic databases
HOGENOM	HBG631383.
OMA	VEHKLEQ.
ProtClustDB	PRK00484.
Enzyme and pathway databases
BioCyc	STYP99287:STM3040-MONOMER.
Family and domain databases
HAMAP	MF_00252. Lys_tRNA_synth_class2. [Tree]
InterPro	IPR004364. aa-tRNA-synt_II. IPR018150. aa-tRNA-synt_II-like. IPR006195. aa-tRNA-synth_II. IPR002313. Lys-tRNA-synth_II. IPR018149. Lys-tRNA-synth_II_C. IPR012340. NA-bd_OB-fold. IPR016027. NA-bd_OB-fold-like. IPR004365. NA-bd_OB_tRNA-helicase. [Graphical view]
Gene3D	G3DSA:2.40.50.140. OB_NA_bd_sub. 1 hit.
KO	K04567.
PANTHER	PTHR22594. aa-tRNA-synt_II. 1 hit. PTHR22594:SF4. tRNA-synt_lys_2. 1 hit.
Pfam	PF00152. tRNA-synt_2. 1 hit. PF01336. tRNA_anti. 1 hit. [Graphical view]
PRINTS	PR00982. TRNASYNTHLYS.
SUPFAM	SSF50249. Nucleic_acid_OB. 1 hit.
TIGRFAMs	TIGR00499. LysS_bact. 1 hit.
PROSITE	PS50862. AA_TRNA_LIGASE_II. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

SYK1_SALTY

Accession

Primary (citable) accession number: P28354

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 1, 1992
Last sequence update:	January 23, 2007
Last modified:	January 25, 2012
This is version 97 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program