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A6Q3R4

- SYV_NITSB

UniProt

A6Q3R4 - SYV_NITSB

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Protein

Valine--tRNA ligase

Gene

valS

Organism
Nitratiruptor sp. (strain SB155-2)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi

Functioni

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.UniRule annotation

Catalytic activityi

ATP + L-valine + tRNA(Val) = AMP + diphosphate + L-valyl-tRNA(Val).UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei537 – 5371ATPUniRule annotation

GO - Molecular functioni

  1. aminoacyl-tRNA editing activity Source: InterPro
  2. ATP binding Source: UniProtKB-HAMAP
  3. valine-tRNA ligase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. valyl-tRNA aminoacylation Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Aminoacyl-tRNA synthetase, Ligase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciNSP387092:GHA5-1052-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Valine--tRNA ligaseUniRule annotation (EC:6.1.1.9UniRule annotation)
Alternative name(s):
Valyl-tRNA synthetaseUniRule annotation
Short name:
ValRSUniRule annotation
Gene namesi
Name:valSUniRule annotation
Ordered Locus Names:NIS_1013
OrganismiNitratiruptor sp. (strain SB155-2)
Taxonomic identifieri387092 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaNitratiruptor
ProteomesiUP000001118: 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 – 871871Valine--tRNA ligasePRO_1000022170Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi387092.NIS_1013.

Structurei

3D structure databases

ProteinModelPortaliA6Q3R4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili805 – 87167UniRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi47 – 5711"HIGH" regionAdd
BLAST
Motifi534 – 5385"KMSKS" region

Domaini

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.UniRule annotation
The C-terminal coiled-coil domain is crucial for aminoacylation activity.UniRule annotation

Sequence similaritiesi

Belongs to the class-I aminoacyl-tRNA synthetase family. ValS type 1 subfamily.UniRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiCOG0525.
HOGENOMiHOG000020093.
KOiK01873.
OMAiTEEHDCG.
OrthoDBiEOG644ZM1.

Family and domain databases

Gene3Di1.10.287.380. 1 hit.
1.10.730.10. 1 hit.
3.40.50.620. 2 hits.
3.90.740.10. 1 hit.
HAMAPiMF_02004. Val_tRNA_synth_type1.
InterProiIPR001412. 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]
PfamiPF08264. Anticodon_1. 1 hit.
PF00133. tRNA-synt_1. 1 hit.
PF10458. Val_tRNA-synt_C. 1 hit.
[Graphical view]
PRINTSiPR00986. TRNASYNTHVAL.
SUPFAMiSSF46589. SSF46589. 1 hit.
SSF47323. SSF47323. 1 hit.
SSF50677. SSF50677. 1 hit.
TIGRFAMsiTIGR00422. valS. 1 hit.
PROSITEiPS00178. AA_TRNA_LIGASE_I. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A6Q3R4-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSKATKYDPK KVERQFYQIW ETRGYFETDG NKKIQNGKTF CIMMPPPNVT
60 70 80 90 100
GRLHIGHALT FTLQDIMVRY KRMDGYETLW QPGTDHAGIA TQNVVEKQLL
110 120 130 140 150
SKGIKKEEIG REKFLEYVWK WKEESGNAIV TQLRLLGVSP AWSRERFTMD
160 170 180 190 200
KGLKNAVREA FVNLYYEGLI VKGNYMINWC THDGALSDIE VEYEEKEGAL
210 220 230 240 250
YHIKYPIVGS DEYLVVATTR PETYFGDTAV MVNPNDERYK HLIGKKVRLP
260 270 280 290 300
LINREIPIIA DEHVDMEFGT GAVKVTPAHD PNDYEVGKRH NLPFITIFDE
310 320 330 340 350
NGILNEEAGE FAGIERLEAR KKVVEKLEQE GFIEKIEPHK HQVGHCYRCG
360 370 380 390 400
NVVEPYISPQ WFVKAEIAKE AVKKANEGET KFYPPQWLNN FNAWMRELRD
410 420 430 440 450
WCISRQLWWG HRIPVWYCRA CGHEWASKKE HEESCPKCGS TDIYQDPDVL
460 470 480 490 500
DTWFSSALWP FSTLGWGNGD WGKGVKWFED DLKKFYPNDL LITGFDILFF
510 520 530 540 550
WVARMMMMGE HFLHKLPFKD VYLHALVRDE HGQKMSKSRG NVIDPIDTIE
560 570 580 590 600
EYSADALRFT LAALAVQGRD IRLSKERLEL YRNFTNKLYN AARFLQIHQE
610 620 630 640 650
KFDDLQNIQI KTDLGKYILS RFGLAIQEVR NNLNSYRFND AATTLYRFLW
660 670 680 690 700
GEFCDWGIEL SKVNKDAIAE LGAIFKESMK LLHPFMPFIT EFLYQELSGT
710 720 730 740 750
SIEENESIMI QPYPKAAPID EEIMKRFETI IDAIVSIRRA KALIDMANKT
760 770 780 790 800
IPKVLIKGDL EESAKAYISK LAKVETIEFV SEPAENAVTD IGNYVEVFIP
810 820 830 840 850
LEGIDLTPIL NRLNKQKEKL QKEIDKLSRM LSNENFVKNA PQAVVEQNRA
860 870
ALAEAQNRLA TIEEELARLT R
Length:871
Mass (Da):100,866
Last modified:August 21, 2007 - v1
Checksum:i74A573E74706C8E7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP009178 Genomic DNA. Translation: BAF70123.1.
RefSeqiWP_012082386.1. NC_009662.1.
YP_001356480.1. NC_009662.1.

Genome annotation databases

EnsemblBacteriaiBAF70123; BAF70123; NIS_1013.
GeneIDi5360927.
KEGGinis:NIS_1013.
PATRICi22684104. VBINitSp82229_1056.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP009178 Genomic DNA. Translation: BAF70123.1 .
RefSeqi WP_012082386.1. NC_009662.1.
YP_001356480.1. NC_009662.1.

3D structure databases

ProteinModelPortali A6Q3R4.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 387092.NIS_1013.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAF70123 ; BAF70123 ; NIS_1013 .
GeneIDi 5360927.
KEGGi nis:NIS_1013.
PATRICi 22684104. VBINitSp82229_1056.

Phylogenomic databases

eggNOGi COG0525.
HOGENOMi HOG000020093.
KOi K01873.
OMAi TEEHDCG.
OrthoDBi EOG644ZM1.

Enzyme and pathway databases

BioCyci NSP387092:GHA5-1052-MONOMER.

Family and domain databases

Gene3Di 1.10.287.380. 1 hit.
1.10.730.10. 1 hit.
3.40.50.620. 2 hits.
3.90.740.10. 1 hit.
HAMAPi MF_02004. Val_tRNA_synth_type1.
InterProi 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 ]
Pfami PF08264. Anticodon_1. 1 hit.
PF00133. tRNA-synt_1. 1 hit.
PF10458. Val_tRNA-synt_C. 1 hit.
[Graphical view ]
PRINTSi PR00986. TRNASYNTHVAL.
SUPFAMi SSF46589. SSF46589. 1 hit.
SSF47323. SSF47323. 1 hit.
SSF50677. SSF50677. 1 hit.
TIGRFAMsi TIGR00422. valS. 1 hit.
PROSITEi PS00178. AA_TRNA_LIGASE_I. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  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.

Entry informationi

Entry nameiSYV_NITSB
AccessioniPrimary (citable) accession number: A6Q3R4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: August 21, 2007
Last modified: October 29, 2014
This is version 50 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference 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