Q87F36 (SYV_XYLFT) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Valine--tRNA ligase
EC=6.1.1.9

Alternative name(s):
Valyl-tRNA synthetase
Short name=ValRS

Gene names

Name:	valS
Ordered Locus Names:	PD_0102

Organism

Xylella fastidiosa (strain Temecula1 / ATCC 700964) [Complete proteome] [HAMAP]

Taxonomic identifier

183190 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Gammaproteobacteria › Xanthomonadales › Xanthomonadaceae › Xylella › Xylella fastidiosa

Protein attributes

Sequence length	994 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Catalyzes the attachment of valine to tRNA(Val). As ValRS can inadvertently accommodate and process structurally similar amino acids such as threonine, to avoid such errors, it has a "posttransfer" editing activity that hydrolyzes mischarged Thr-tRNA(Val) in a tRNA-dependent manner By similarity. HAMAP-Rule MF_02004
Catalytic activity	ATP + L-valine + tRNA(Val) = AMP + diphosphate + L-valyl-tRNA(Val). HAMAP-Rule MF_02004
Subunit structure	Monomer By similarity.
Subcellular location	Cytoplasm By similarity.
Domain	ValRS has two distinct active sites: one for aminoacylation and one for editing. The misactivated threonine is translocated from the active site to the editing site By similarity. HAMAP-Rule MF_02004 The C-terminal coiled-coil domain is crucial for aminoacylation activity By similarity. HAMAP-Rule MF_02004
Sequence similarities	Belongs to the class-I aminoacyl-tRNA synthetase family. ValS type 1 subfamily.

Ontologies

Keywords
Biological process	Protein biosynthesis
Cellular component	Cytoplasm
Domain	Coiled coil
Ligand	ATP-binding Nucleotide-binding
Molecular function	Aminoacyl-tRNA synthetase Ligase
Technical term	Complete proteome
Gene Ontology (GO)
Biological_process	regulation of translational fidelity Inferred from electronic annotation. Source: GOC valyl-tRNA aminoacylation Inferred from electronic annotation. Source: HAMAP
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 valine-tRNA ligase activity 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 – 994	994	Valine--tRNA ligase HAMAP-Rule MF_02004		PRO_0000106245
Regions
	Coiled coil	928 – 994	67	Potential
	Motif	43 – 53	11	"HIGH" region HAMAP-Rule MF_02004
	Motif	585 – 589	5	"KMSKS" region HAMAP-Rule MF_02004
Sites
	Binding site	588	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q87F36 [UniParc]. Last modified June 16, 2003. Version 1. Checksum: 0D86509CC29734BB	FASTA	994	111,465
	10 20 30 40 50 60 MSQFTSSYDP TSFEARLYAE WEAAGHFKPS GVGQPYTILL PPPNVTGTLH MGHAFQQTLM 70 80 90 100 110 120 DALVRYHRMC GDDTLWQVGT DHAGIATEMV VSRNMALEGR GETRDSLGRE GFINKVWEWK 130 140 150 160 170 180 QQSGDTIERQ MRRLGVSADW SRSTFTMDAQ PSAAVTEAFV RWYEEGLIYR GQRLVNWDPV 190 200 210 220 230 240 LKTAISDLEV ENVQEEGMLW SIRYPLSDGV TYEHIEHDAA GNETLRETRD SLIVATTRPE 250 260 270 280 290 300 TLLGDTAVMV HPEDRRYTAL IGKTVTLPLT GRQIEVISDT YVEPTFGTGV VKVTPAHDFN 310 320 330 340 350 360 DYQVGLRHRL PMIQVLDDAA CIVSKTSIQS GIASGATSDT TDTPSDSDAS NASNQHDTLI 370 380 390 400 410 420 MPAHLAGLDR YEARKQILAD LDAQGLLVAA TPHTLQVPRG DRTGQVIEPY LTAQWFVRME 430 440 450 460 470 480 TLAARGLELV ERGAVRFVPP NWINTYRHWM ENIQDWCISR QLWWGHRIPA WFDTQGCVYV 490 500 510 520 530 540 GRSEAEVRAK HALGPEVTLT QDNDVLETWF SSQLWPFSTL GWPDPMAMAE RGFERYLPSS 550 560 570 580 590 600 VLVTGFDIIF FWVARMIMAT DHFTGNVPFH DVYITGLIRD AQGQKMSKSK GNVLDPLDII 610 620 630 640 650 660 DGITLDDLVA KRTTGLMQPK LAEKIAKATR KEFPDGIAPH GADALRFTIA ALATHGRDIK 670 680 690 700 710 720 FDLGRAEGYK NFCNKLWNAT RFVLMNTAGD TAHSPAQHQA GQDGQDVPRT PQPRTDAEQW 730 740 750 760 770 780 ILSRLAAVTA EAHAQFAAYR FDLLAQALYE FAWNEFCDWF VELAKPALNG DDTQAAASTR 790 800 810 820 830 840 HTLLYVLETL LRLLHPLIPF ITEELWCQVA PRLGIQATTL MLRPYPQPQQ LETTAFANAA 850 860 870 880 890 900 ADVEWLKIMV SALRRIRSTL NVPPSRRISL LLQGGQEVDR RRITHFAIAL HFLLKLEHID 910 920 930 940 950 960 WLSATTAAPP SATAIVGSLK LLVPLEGLID VDAERARLDK EIKRVESEID KSNGKLSNAV 970 980 990 FVQNAPTAVV EQERSRLREW TTQLNGLRER RTTL

References

[1]

"Comparative analyses of the complete genome sequences of Pierce's disease and citrus variegated chlorosis strains of Xylella fastidiosa." Van Sluys M.A., de Oliveira M.C., Monteiro-Vitorello C.B., Miyaki C.Y., Furlan L.R., Camargo L.E.A., da Silva A.C.R., Moon D.H., Takita M.A., Lemos E.G.M., Machado M.A., Ferro M.I.T., da Silva F.R., Goldman M.H.S., Goldman G.H., Lemos M.V.F., El-Dorry H., Tsai S.M. , Carrer H., Carraro D.M., de Oliveira R.C., Nunes L.R., Siqueira W.J., Coutinho L.L., Kimura E.T., Ferro E.S., Harakava R., Kuramae E.E., Marino C.L., Giglioti E., Abreu I.L., Alves L.M.C., do Amaral A.M., Baia G.S., Blanco S.R., Brito M.S., Cannavan F.S., Celestino A.V., da Cunha A.F., Fenille R.C., Ferro J.A., Formighieri E.F., Kishi L.T., Leoni S.G., Oliveira A.R., Rosa V.E. Jr., Sassaki F.T., Sena J.A.D., de Souza A.A., Truffi D., Tsukumo F., Yanai G.M., Zaros L.G., Civerolo E.L., Simpson A.J.G., Almeida N.F. Jr., Setubal J.C., Kitajima J.P. J. Bacteriol. 185:1018-1026(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: Temecula1 / ATCC 700964.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE009442 Genomic DNA. Translation: AAO28001.1.
RefSeq	NP_778352.1. NC_004556.1.
3D structure databases
ProteinModelPortal	Q87F36.
ModBase	Search...
Protein-protein interaction databases
STRING	183190.PD0102.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAO28001; AAO28001; PD_0102.
GeneID	1144314.
KEGG	xft:PD0102.
PATRIC	24147614. VBIXylFas71109_0142.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0525.
KO	K01873.
OMA	IMDALIR.
ProtClustDB	PRK05729.
Family and domain databases
Gene3D	1.10.287.380. 1 hit. 3.40.50.620. 3 hits. 3.90.740.10. 2 hits.
HAMAP	MF_02004. Val_tRNA_synth_type1.
InterPro	IPR001412. aa-tRNA-synth_I_CS. IPR002300. aa-tRNA-synth_Ia. IPR014729. Rossmann-like_a/b/a_fold. IPR010978. tRNA-bd_arm. IPR009080. tRNAsynth_1a_anticodon-bd. IPR013155. V/L/I-tRNA-synth_anticodon-bd. IPR019499. Val-tRNA_synth_tRNA-bd. IPR009008. Val/Leu/Ile-tRNA-synth_edit. IPR002303. Valyl-tRNA_ligase. [Graphical view]
PANTHER	PTHR11946:SF5. PTHR11946:SF5. 1 hit.
Pfam	PF08264. Anticodon_1. 1 hit. PF00133. tRNA-synt_1. 1 hit. PF10458. Val_tRNA-synt_C. 1 hit. [Graphical view]
PRINTS	PR00986. TRNASYNTHVAL.
SUPFAM	SSF46589. tRNA_binding_arm. 1 hit. SSF47323. tRNAsyn_1a_bind. 1 hit. SSF50677. ValRS_IleRS_edit. 1 hit.
TIGRFAMs	TIGR00422. valS. 1 hit.
PROSITE	PS00178. AA_TRNA_LIGASE_I. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

SYV_XYLFT

Accession

Primary (citable) accession number: Q87F36

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 16, 2003
Last sequence update:	June 16, 2003
Last modified:	May 1, 2013
This is version 71 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program