SYK_BURTA
ID SYK_BURTA Reviewed; 508 AA.
AC Q2SXD6;
DT 15-JAN-2008, integrated into UniProtKB/Swiss-Prot.
DT 24-JAN-2006, sequence version 1.
DT 03-AUG-2022, entry version 103.
DE RecName: Full=Lysine--tRNA ligase {ECO:0000255|HAMAP-Rule:MF_00252};
DE EC=6.1.1.6 {ECO:0000255|HAMAP-Rule:MF_00252};
DE AltName: Full=Lysyl-tRNA synthetase {ECO:0000255|HAMAP-Rule:MF_00252};
DE Short=LysRS {ECO:0000255|HAMAP-Rule:MF_00252};
GN Name=lysS {ECO:0000255|HAMAP-Rule:MF_00252}; OrderedLocusNames=BTH_I1883;
OS Burkholderia thailandensis (strain ATCC 700388 / DSM 13276 / CIP 106301 /
OS E264).
OC Bacteria; Proteobacteria; Betaproteobacteria; Burkholderiales;
OC Burkholderiaceae; Burkholderia; pseudomallei group.
OX NCBI_TaxID=271848;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 700388 / DSM 13276 / CIP 106301 / E264;
RX PubMed=16336651; DOI=10.1186/1471-2164-6-174;
RA Kim H.S., Schell M.A., Yu Y., Ulrich R.L., Sarria S.H., Nierman W.C.,
RA DeShazer D.;
RT "Bacterial genome adaptation to niches: divergence of the potential
RT virulence genes in three Burkholderia species of different survival
RT strategies.";
RL BMC Genomics 6:174-174(2005).
CC -!- CATALYTIC ACTIVITY:
CC Reaction=ATP + L-lysine + tRNA(Lys) = AMP + diphosphate + L-lysyl-
CC tRNA(Lys); Xref=Rhea:RHEA:20792, Rhea:RHEA-COMP:9696, Rhea:RHEA-
CC COMP:9697, ChEBI:CHEBI:30616, ChEBI:CHEBI:32551, ChEBI:CHEBI:33019,
CC ChEBI:CHEBI:78442, ChEBI:CHEBI:78529, ChEBI:CHEBI:456215; EC=6.1.1.6;
CC Evidence={ECO:0000255|HAMAP-Rule:MF_00252};
CC -!- COFACTOR:
CC Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
CC Evidence={ECO:0000255|HAMAP-Rule:MF_00252};
CC Note=Binds 3 Mg(2+) ions per subunit. {ECO:0000255|HAMAP-
CC Rule:MF_00252};
CC -!- SUBUNIT: Homodimer. {ECO:0000255|HAMAP-Rule:MF_00252}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000255|HAMAP-Rule:MF_00252}.
CC -!- SIMILARITY: Belongs to the class-II aminoacyl-tRNA synthetase family.
CC {ECO:0000255|HAMAP-Rule:MF_00252}.
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DR EMBL; CP000086; ABC37378.1; -; Genomic_DNA.
DR RefSeq; WP_009890173.1; NZ_CP008785.1.
DR PDB; 4EX5; X-ray; 2.40 A; A/B=1-508.
DR PDBsum; 4EX5; -.
DR AlphaFoldDB; Q2SXD6; -.
DR SMR; Q2SXD6; -.
DR PRIDE; Q2SXD6; -.
DR EnsemblBacteria; ABC37378; ABC37378; BTH_I1883.
DR KEGG; bte:BTH_I1883; -.
DR HOGENOM; CLU_008255_6_0_4; -.
DR OMA; EIFGEKC; -.
DR OrthoDB; 63621at2; -.
DR Proteomes; UP000001930; Chromosome I.
DR GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
DR GO; GO:0005524; F:ATP binding; IEA:UniProtKB-UniRule.
DR GO; GO:0004824; F:lysine-tRNA ligase activity; IEA:UniProtKB-UniRule.
DR GO; GO:0000287; F:magnesium ion binding; IEA:UniProtKB-UniRule.
DR GO; GO:0003676; F:nucleic acid binding; IEA:InterPro.
DR GO; GO:0006430; P:lysyl-tRNA aminoacylation; IEA:UniProtKB-UniRule.
DR CDD; cd00775; LysRS_core; 1.
DR CDD; cd04322; LysRS_N; 1.
DR Gene3D; 2.40.50.140; -; 1.
DR Gene3D; 3.30.930.10; -; 1.
DR HAMAP; MF_00252; Lys_tRNA_synth_class2; 1.
DR InterPro; IPR004364; Aa-tRNA-synt_II.
DR InterPro; IPR006195; aa-tRNA-synth_II.
DR InterPro; IPR045864; aa-tRNA-synth_II/BPL/LPL.
DR InterPro; IPR002313; Lys-tRNA-ligase_II.
DR InterPro; IPR044136; Lys-tRNA-ligase_II_N.
DR InterPro; IPR018149; Lys-tRNA-synth_II_C.
DR InterPro; IPR012340; NA-bd_OB-fold.
DR InterPro; IPR004365; NA-bd_OB_tRNA.
DR Pfam; PF00152; tRNA-synt_2; 1.
DR Pfam; PF01336; tRNA_anti-codon; 1.
DR PRINTS; PR00982; TRNASYNTHLYS.
DR SUPFAM; SSF50249; SSF50249; 1.
DR SUPFAM; SSF55681; SSF55681; 1.
DR TIGRFAMs; TIGR00499; lysS_bact; 1.
DR PROSITE; PS50862; AA_TRNA_LIGASE_II; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Aminoacyl-tRNA synthetase; ATP-binding; Cytoplasm; Ligase;
KW Magnesium; Metal-binding; Nucleotide-binding; Protein biosynthesis.
FT CHAIN 1..508
FT /note="Lysine--tRNA ligase"
FT /id="PRO_1000012859"
FT BINDING 418
FT /ligand="Mg(2+)"
FT /ligand_id="ChEBI:CHEBI:18420"
FT /ligand_label="1"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00252"
FT BINDING 425
FT /ligand="Mg(2+)"
FT /ligand_id="ChEBI:CHEBI:18420"
FT /ligand_label="1"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00252"
FT BINDING 425
FT /ligand="Mg(2+)"
FT /ligand_id="ChEBI:CHEBI:18420"
FT /ligand_label="2"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00252"
FT HELIX 16..31
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 46..52
FT /evidence="ECO:0007829|PDB:4EX5"
FT TURN 53..55
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 58..64
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 67..80
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 83..89
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 94..99
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 101..104
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 106..113
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 120..129
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 135..146
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 164..167
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 169..175
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 177..199
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 209..213
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 216..219
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 223..226
FT /evidence="ECO:0007829|PDB:4EX5"
FT TURN 227..230
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 231..235
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 240..248
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 252..261
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 272..282
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 286..305
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 308..312
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 315..318
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 324..327
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 328..335
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 341..344
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 347..356
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 364..366
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 371..382
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 384..386
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 391..397
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 398..400
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 408..410
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 413..421
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 424..432
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 436..451
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 462..469
FT /evidence="ECO:0007829|PDB:4EX5"
FT STRAND 475..481
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 482..490
FT /evidence="ECO:0007829|PDB:4EX5"
FT HELIX 495..498
FT /evidence="ECO:0007829|PDB:4EX5"
SQ SEQUENCE 508 AA; 57233 MW; 6AC3B72F4B0FA765 CRC64;
MTEPIQPQAA VAADENQIVA ERRDKLRALR DQGIAYPNDF QPTHHAADLQ TAYADADKEA
LEAKSLEVAI AGRMMLKRVM GKASFATVQD GSGQIQFFVT PADVGAETYD AFKKWDLGDI
VAARGVLFRT NKGELSVKCT QLRLLAKALR PLPDKFHGLA DQETRYRQRY VDLIVTPETR
TTFRARTKAI ASIRKFMGDA DFMEVETPML HPIPGGAAAK PFVTHHNALD MEMFLRIAPE
LYLKRLIVGG FERVFEINRN FRNEGVSPRH NPEFTMMEFY AAYTDYRWLM DFTERLIRQA
AVDALGTATI QYQGRELDLA QPFHRLTITQ AIQKYAPSYT DGQLSDDAFL RSELKRLGVD
VTQPAFLNAG IGALQLALFE ETAEAQLWEP TFIIDYPIEV SPLARESDTV AGITERFELF
ITGREIANGF SELNDPEDQA ARFKKQVEQK DAGDEEAMFF DADYIRALEY GMPPTGGCGI
GIDRLVMLLT DSPTIRDVLL FPHLRRED
