A6Q3R4 (SYV_NITSB) 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:	NIS_1013

Organism

Nitratiruptor sp. (strain SB155-2) [Complete proteome] [HAMAP]

Taxonomic identifier

387092 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › delta/epsilon subdivisions › Epsilonproteobacteria › unclassified Epsilonproteobacteria › Nitratiruptor

Protein attributes

Sequence length	871 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. HAMAP-Rule MF_02004
Subcellular location	Cytoplasm By similarity HAMAP-Rule MF_02004.
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 – 871	871	Valine--tRNA ligase HAMAP-Rule MF_02004		PRO_1000022170
Regions
	Coiled coil	805 – 871	67	Potential
	Motif	47 – 57	11	"HIGH" region HAMAP-Rule MF_02004
	Motif	534 – 538	5	"KMSKS" region HAMAP-Rule MF_02004
Sites
	Binding site	537	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	A6Q3R4 [UniParc]. Last modified August 21, 2007. Version 1. Checksum: 74A573E74706C8E7	FASTA	871	100,866
	10 20 30 40 50 60 MSKATKYDPK KVERQFYQIW ETRGYFETDG NKKIQNGKTF CIMMPPPNVT GRLHIGHALT 70 80 90 100 110 120 FTLQDIMVRY KRMDGYETLW QPGTDHAGIA TQNVVEKQLL SKGIKKEEIG REKFLEYVWK 130 140 150 160 170 180 WKEESGNAIV TQLRLLGVSP AWSRERFTMD KGLKNAVREA FVNLYYEGLI VKGNYMINWC 190 200 210 220 230 240 THDGALSDIE VEYEEKEGAL YHIKYPIVGS DEYLVVATTR PETYFGDTAV MVNPNDERYK 250 260 270 280 290 300 HLIGKKVRLP LINREIPIIA DEHVDMEFGT GAVKVTPAHD PNDYEVGKRH NLPFITIFDE 310 320 330 340 350 360 NGILNEEAGE FAGIERLEAR KKVVEKLEQE GFIEKIEPHK HQVGHCYRCG NVVEPYISPQ 370 380 390 400 410 420 WFVKAEIAKE AVKKANEGET KFYPPQWLNN FNAWMRELRD WCISRQLWWG HRIPVWYCRA 430 440 450 460 470 480 CGHEWASKKE HEESCPKCGS TDIYQDPDVL DTWFSSALWP FSTLGWGNGD WGKGVKWFED 490 500 510 520 530 540 DLKKFYPNDL LITGFDILFF WVARMMMMGE HFLHKLPFKD VYLHALVRDE HGQKMSKSRG 550 560 570 580 590 600 NVIDPIDTIE EYSADALRFT LAALAVQGRD IRLSKERLEL YRNFTNKLYN AARFLQIHQE 610 620 630 640 650 660 KFDDLQNIQI KTDLGKYILS RFGLAIQEVR NNLNSYRFND AATTLYRFLW GEFCDWGIEL 670 680 690 700 710 720 SKVNKDAIAE LGAIFKESMK LLHPFMPFIT EFLYQELSGT SIEENESIMI QPYPKAAPID 730 740 750 760 770 780 EEIMKRFETI IDAIVSIRRA KALIDMANKT IPKVLIKGDL EESAKAYISK LAKVETIEFV 790 800 810 820 830 840 SEPAENAVTD IGNYVEVFIP LEGIDLTPIL NRLNKQKEKL QKEIDKLSRM LSNENFVKNA 850 860 870 PQAVVEQNRA ALAEAQNRLA TIEEELARLT R

References

[1]

"Deep-sea vent epsilon-proteobacterial genomes provide insights into emergence of pathogens." Nakagawa S., Takaki Y., Shimamura S., Reysenbach A.-L., Takai K., Horikoshi K. Proc. Natl. Acad. Sci. U.S.A. 104:12146-12150(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: SB155-2.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AP009178 Genomic DNA. Translation: BAF70123.1.
RefSeq	YP_001356480.1. NC_009662.1.
3D structure databases
ProteinModelPortal	A6Q3R4.
ModBase	Search...
Protein-protein interaction databases
STRING	387092.NIS_1013.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	BAF70123; BAF70123; NIS_1013.
GeneID	5360927.
KEGG	nis:NIS_1013.
PATRIC	22684104. VBINitSp82229_1056.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0525.
HOGENOM	HOG000020093.
KO	K01873.
OMA	IMDALIR.
ProtClustDB	PRK05729.
Enzyme and pathway databases
BioCyc	NSP387092:GHA5-1052-MONOMER.
Family and domain databases
Gene3D	1.10.287.380. 1 hit. 3.40.50.620. 2 hits. 3.90.740.10. 1 hit.
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_NITSB

Accession

Primary (citable) accession number: A6Q3R4

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 15, 2008
Last sequence update:	August 21, 2007
Last modified:	May 29, 2013
This is version 42 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program