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Protein

Lysine--tRNA ligase

Gene

lysS

Organism
Geobacillus stearothermophilus (Bacillus stearothermophilus)
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

Mg2+By similarityNote: Binds 3 Mg2+ ions per subunit.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi405 – 4051Magnesium 1By similarity
Metal bindingi412 – 4121Magnesium 1By similarity
Metal bindingi412 – 4121Magnesium 2By similarity

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, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BRENDAi6.1.1.6. 623.

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
OrganismiGeobacillus stearothermophilus (Bacillus stearothermophilus)
Taxonomic identifieri1422 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeGeobacillus

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 494494Lysine--tRNA ligasePRO_0000152599Add
BLAST

Proteomic databases

PRIDEiQ9RHV9.

Interactioni

Subunit structurei

Homodimer.By similarity

Structurei

Secondary structure

1
494
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi8 – 2215Combined sources
Helixi38 – 458Combined sources
Helixi50 – 567Combined sources
Beta strandi59 – 7214Combined sources
Beta strandi75 – 828Combined sources
Beta strandi85 – 928Combined sources
Helixi93 – 10614Combined sources
Beta strandi112 – 12110Combined sources
Beta strandi127 – 13812Combined sources
Helixi154 – 1596Combined sources
Helixi161 – 1677Combined sources
Helixi170 – 19122Combined sources
Beta strandi201 – 2055Combined sources
Beta strandi208 – 2114Combined sources
Beta strandi215 – 2184Combined sources
Turni219 – 2224Combined sources
Beta strandi223 – 2275Combined sources
Helixi232 – 2409Combined sources
Beta strandi245 – 2539Combined sources
Beta strandi264 – 27411Combined sources
Helixi278 – 29720Combined sources
Beta strandi300 – 3045Combined sources
Beta strandi307 – 3104Combined sources
Beta strandi316 – 3194Combined sources
Helixi320 – 3278Combined sources
Helixi338 – 34710Combined sources
Helixi358 – 36912Combined sources
Helixi371 – 3733Combined sources
Beta strandi378 – 3814Combined sources
Helixi385 – 3873Combined sources
Beta strandi400 – 4089Combined sources
Beta strandi411 – 4199Combined sources
Helixi423 – 43816Combined sources
Helixi449 – 4568Combined sources
Beta strandi461 – 4688Combined sources
Helixi469 – 4768Combined sources
Helixi482 – 4843Combined sources
Beta strandi486 – 4883Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3A74X-ray1.80A/B/C/D2-494[»]
3E9HX-ray2.10A/B/C/D2-494[»]
3E9IX-ray2.20A/B/C/D2-494[»]
ProteinModelPortaliQ9RHV9.
SMRiQ9RHV9. Positions 5-492.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9RHV9.

Family & Domainsi

Sequence similaritiesi

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
HAMAPiMF_00252. Lys_tRNA_synth_class2.
InterProiIPR004364. aa-tRNA-synt_II.
IPR018150. aa-tRNA-synt_II-like.
IPR006195. aa-tRNA-synth_II.
IPR002313. Lys-tRNA-ligase_II.
IPR018149. Lys-tRNA-synth_II_C.
IPR012340. NA-bd_OB-fold.
IPR004365. NA-bd_OB_tRNA.
[Graphical view]
PANTHERiPTHR22594. PTHR22594. 1 hit.
PfamiPF00152. tRNA-synt_2. 1 hit.
PF01336. tRNA_anti-codon. 1 hit.
[Graphical view]
PIRSFiPIRSF039101. LysRS2. 1 hit.
PRINTSiPR00982. TRNASYNTHLYS.
SUPFAMiSSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR00499. lysS_bact. 1 hit.
PROSITEiPS50862. AA_TRNA_LIGASE_II. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9RHV9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSHEELNDQL RVRREKLKKI EELGVDPFGK RFERTHKAEE LFELYGDLSK
60 70 80 90 100
EELEEQQIEV AVAGRIMTKR GMGKAGFAHI QDVTGQIQIY VRQDDVGEQQ
110 120 130 140 150
YELFKISDLG DIVGVRGTMF KTKVGELSIK VSSYEFLTKA LRPLPEKYHG
160 170 180 190 200
LKDIEQRYRQ RYLDLIMNPE SKKTFITRSL IIQSMRRYLD SHGYLEVETP
210 220 230 240 250
MMHAVAGGAA ARPFITHHNA LDMTLYMRIA IELHLKRLIV GGLEKVYEIG
260 270 280 290 300
RVFRNEGIST RHNPEFTMLE LYEAYADFRD IMKLTENLIA HIATEVLGTT
310 320 330 340 350
KIQYGEHLVD LTPEWRRLHM VDAIKEYVGV DFWRQMSDEE ARELAKEHGV
360 370 380 390 400
EVAPHMTFGH IVNEFFEQKV EDKLIQPTFI YGHPVEISPL AKKNPDDPRF
410 420 430 440 450
TDRFELFIVG REHANAFTEL NDPIDQRQRF EEQLKEREQG NDEAHEMDED
460 470 480 490
FLEALEYGMP PTGGLGIGVD RLVMLLTNSP SIRDVLLFPQ MRHK
Length:494
Mass (Da):57,406
Last modified:May 1, 2000 - v1
Checksum:i109D1A4FDD7F714C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB012100 Genomic DNA. Translation: BAA88691.1.
PIRiJC7205.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB012100 Genomic DNA. Translation: BAA88691.1.
PIRiJC7205.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3A74X-ray1.80A/B/C/D2-494[»]
3E9HX-ray2.10A/B/C/D2-494[»]
3E9IX-ray2.20A/B/C/D2-494[»]
ProteinModelPortaliQ9RHV9.
SMRiQ9RHV9. Positions 5-492.
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiQ9RHV9.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Enzyme and pathway databases

BRENDAi6.1.1.6. 623.

Miscellaneous databases

EvolutionaryTraceiQ9RHV9.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
HAMAPiMF_00252. Lys_tRNA_synth_class2.
InterProiIPR004364. aa-tRNA-synt_II.
IPR018150. aa-tRNA-synt_II-like.
IPR006195. aa-tRNA-synth_II.
IPR002313. Lys-tRNA-ligase_II.
IPR018149. Lys-tRNA-synth_II_C.
IPR012340. NA-bd_OB-fold.
IPR004365. NA-bd_OB_tRNA.
[Graphical view]
PANTHERiPTHR22594. PTHR22594. 1 hit.
PfamiPF00152. tRNA-synt_2. 1 hit.
PF01336. tRNA_anti-codon. 1 hit.
[Graphical view]
PIRSFiPIRSF039101. LysRS2. 1 hit.
PRINTSiPR00982. TRNASYNTHLYS.
SUPFAMiSSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR00499. lysS_bact. 1 hit.
PROSITEiPS50862. AA_TRNA_LIGASE_II. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Lysyl-tRNA synthetase of Bacillus stearothermophilus molecular cloning and expression of the gene."
    Takita T., Shimizu N., Sukata T., Hashimoto S., Akita E., Yokota T., Esaki N., Soda K., Inouye K., Tonomura B.
    Biosci. Biotechnol. Biochem. 64:432-437(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 29609 / DSM 2027 / NCA 1503 / NCIMB 8924.

Entry informationi

Entry nameiSYK_GEOSE
AccessioniPrimary (citable) accession number: Q9RHV9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: May 1, 2000
Last modified: October 14, 2015
This is version 92 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

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.