Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Lysine--tRNA ligase

Gene

lysS

Organism
Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalytic activityi

ATP + L-lysine + tRNA(Lys) = AMP + diphosphate + L-lysyl-tRNA(Lys).

Cofactori

Zn2+Note: Binds 2 Zn2+ ions per subunit.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi95Zinc 11
Metal bindingi99Zinc 11
Metal bindingi100Zinc 11
Metal bindingi106Zinc 11
Metal bindingi177Zinc 21
Metal bindingi180Zinc 21
Metal bindingi199Zinc 21
Metal bindingi203Zinc 21

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Aminoacyl-tRNA synthetase, Ligase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

ATP-binding, Metal-binding, Nucleotide-binding, Zinc

Enzyme and pathway databases

BRENDAi6.1.1.6. 5244.

Names & Taxonomyi

Protein namesi
Recommended name:
Lysine--tRNA ligase (EC:6.1.1.6)
Alternative name(s):
Lysyl-tRNA synthetase
Short name:
LysRS
Gene namesi
Name:lysS
Ordered Locus Names:PH0224
OrganismiPyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Taxonomic identifieri70601 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000000752 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001527601 – 523Lysine--tRNA ligaseAdd BLAST523

Interactioni

Protein-protein interaction databases

STRINGi70601.PH0224.

Structurei

Secondary structure

1523
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi4 – 15Combined sources12
Beta strandi20 – 28Combined sources9
Helixi36 – 53Combined sources18
Turni54 – 56Combined sources3
Beta strandi58 – 65Combined sources8
Beta strandi76 – 78Combined sources3
Helixi80 – 85Combined sources6
Turni90 – 92Combined sources3
Beta strandi98 – 102Combined sources5
Helixi103 – 116Combined sources14
Turni117 – 119Combined sources3
Beta strandi123 – 126Combined sources4
Helixi127 – 132Combined sources6
Turni133 – 136Combined sources4
Helixi137 – 145Combined sources9
Helixi147 – 160Combined sources14
Beta strandi172 – 176Combined sources5
Turni178 – 180Combined sources3
Beta strandi186 – 189Combined sources4
Beta strandi191 – 193Combined sources3
Beta strandi195 – 197Combined sources3
Beta strandi200 – 202Combined sources3
Beta strandi214 – 216Combined sources3
Helixi218 – 228Combined sources11
Helixi238 – 241Combined sources4
Helixi246 – 258Combined sources13
Beta strandi271 – 274Combined sources4
Helixi290 – 294Combined sources5
Helixi299 – 307Combined sources9
Beta strandi315 – 317Combined sources3
Helixi323 – 337Combined sources15
Helixi349 – 357Combined sources9
Helixi371 – 377Combined sources7
Helixi385 – 394Combined sources10
Helixi404 – 423Combined sources20
Helixi427 – 429Combined sources3
Helixi444 – 458Combined sources15
Helixi465 – 479Combined sources15
Helixi483 – 495Combined sources13
Beta strandi496 – 499Combined sources4
Helixi503 – 508Combined sources6
Helixi512 – 519Combined sources8

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1IRXX-ray2.60A/B1-523[»]
ProteinModelPortaliO57963.
SMRiO57963.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO57963.

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi30 – 38"HIGH" region9
Motifi279 – 283"KMSKS" region5

Sequence similaritiesi

Phylogenomic databases

eggNOGiarCOG00485. Archaea.
COG1384. LUCA.
HOGENOMiHOG000226938.
KOiK04566.
OMAiHNNAMLR.

Family and domain databases

Gene3Di1.10.10.350. 1 hit.
2.30.30.300. 1 hit.
3.40.50.620. 2 hits.
HAMAPiMF_00177. Lys_tRNA_synth_class1. 1 hit.
InterProiIPR008925. aa-tRNA-synth_I_codon-bd.
IPR020751. aa-tRNA-synth_I_codon-bd_sub2.
IPR001412. aa-tRNA-synth_I_CS.
IPR002904. Lys-tRNA-ligase.
IPR023386. Lys-tRNA-ligase_insertion.
IPR014729. Rossmann-like_a/b/a_fold.
[Graphical view]
SUPFAMiSSF48163. SSF48163. 1 hit.
TIGRFAMsiTIGR00467. lysS_arch. 1 hit.
PROSITEiPS00178. AA_TRNA_LIGASE_I. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O57963-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVHWADYIAD KIIRERGEKE KYVVESGITP SGYVHVGNFR ELFTAYIVGH
60 70 80 90 100
ALRDKGYEVR HIHMWDDYDR FRKVPRNVPQ EWKDYLGMPI SEVPDPWGCH
110 120 130 140 150
ESYAEHFMRK FEEEVEKLGI EVDFLYASEL YKRGEYSEEI RLAFEKRDKI
160 170 180 190 200
MEILNKYREI AKQPPLPENW WPAMVYCPEH RREAEIIEWD GGWKVKYKCP
210 220 230 240 250
EGHEGWVDIR SGNVKLRWRV DWPMRWSHFG VDFEPAGKDH LVAGSSYDTG
260 270 280 290 300
KEIIKEVYGK EAPLSLMYEF VGIKGQKGKM SGSKGNVILL SDLYEVLEPG
310 320 330 340 350
LVRFIYARHR PNKEIKIDLG LGILNLYDEF DKVERIYFGV EGGKGDDEEL
360 370 380 390 400
RRTYELSMPK KPERLVAQAP FRFLAVLVQL PHLTEEDIIN VLIKQGHIPR
410 420 430 440 450
DLSKEDVERV KLRINLARNW VKKYAPEDVK FSILEKPPEV EVSEDVREAM
460 470 480 490 500
NEVAEWLENH EEFSVEEFNN ILFEVAKRRG ISSREWFSTL YRLFIGKERG
510 520
PRLASFLASL DRSFVIKRLR LEG
Length:523
Mass (Da):61,579
Last modified:August 1, 1998 - v1
Checksum:i0FA9AD39FE7FCD49
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA. Translation: BAA29296.1.
PIRiA71246.
RefSeqiWP_010884327.1. NC_000961.1.

Genome annotation databases

EnsemblBacteriaiBAA29296; BAA29296; BAA29296.
GeneIDi1444114.
KEGGipho:PH0224.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA. Translation: BAA29296.1.
PIRiA71246.
RefSeqiWP_010884327.1. NC_000961.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1IRXX-ray2.60A/B1-523[»]
ProteinModelPortaliO57963.
SMRiO57963.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi70601.PH0224.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAA29296; BAA29296; BAA29296.
GeneIDi1444114.
KEGGipho:PH0224.

Phylogenomic databases

eggNOGiarCOG00485. Archaea.
COG1384. LUCA.
HOGENOMiHOG000226938.
KOiK04566.
OMAiHNNAMLR.

Enzyme and pathway databases

BRENDAi6.1.1.6. 5244.

Miscellaneous databases

EvolutionaryTraceiO57963.

Family and domain databases

Gene3Di1.10.10.350. 1 hit.
2.30.30.300. 1 hit.
3.40.50.620. 2 hits.
HAMAPiMF_00177. Lys_tRNA_synth_class1. 1 hit.
InterProiIPR008925. aa-tRNA-synth_I_codon-bd.
IPR020751. aa-tRNA-synth_I_codon-bd_sub2.
IPR001412. aa-tRNA-synth_I_CS.
IPR002904. Lys-tRNA-ligase.
IPR023386. Lys-tRNA-ligase_insertion.
IPR014729. Rossmann-like_a/b/a_fold.
[Graphical view]
SUPFAMiSSF48163. SSF48163. 1 hit.
TIGRFAMsiTIGR00467. lysS_arch. 1 hit.
PROSITEiPS00178. AA_TRNA_LIGASE_I. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSYK_PYRHO
AccessioniPrimary (citable) accession number: O57963
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: August 1, 1998
Last modified: November 2, 2016
This is version 115 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

3D-structure, Complete proteome

Documents

  1. Aminoacyl-tRNA synthetases
    List of aminoacyl-tRNA synthetase entries
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.