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6O3F

Crystal Structure of Lysyl-tRNA Synthetase from Chlamydia trachomatis with complexed with L-lysine and a difluoro cyclohexyl chromone ligand

Functional Information from GO Data
ChainGOidnamespacecontents
A0000049molecular_functiontRNA binding
A0000166molecular_functionnucleotide binding
A0000287molecular_functionmagnesium ion binding
A0003676molecular_functionnucleic acid binding
A0004812molecular_functionaminoacyl-tRNA ligase activity
A0004824molecular_functionlysine-tRNA ligase activity
A0005524molecular_functionATP binding
A0005737cellular_componentcytoplasm
A0005829cellular_componentcytosol
A0006412biological_processtranslation
A0006418biological_processtRNA aminoacylation for protein translation
A0006430biological_processlysyl-tRNA aminoacylation
A0016874molecular_functionligase activity
A0046872molecular_functionmetal ion binding
B0000049molecular_functiontRNA binding
B0000166molecular_functionnucleotide binding
B0000287molecular_functionmagnesium ion binding
B0003676molecular_functionnucleic acid binding
B0004812molecular_functionaminoacyl-tRNA ligase activity
B0004824molecular_functionlysine-tRNA ligase activity
B0005524molecular_functionATP binding
B0005737cellular_componentcytoplasm
B0005829cellular_componentcytosol
B0006412biological_processtranslation
B0006418biological_processtRNA aminoacylation for protein translation
B0006430biological_processlysyl-tRNA aminoacylation
B0016874molecular_functionligase activity
B0046872molecular_functionmetal ion binding
Functional Information from PDB Data
site_idAC1
Number of Residues17
Detailsbinding site for residue FYB A 701
ChainResidue
AARG271
AASN441
AGLY493
AILE494
AGLY495
AARG498
AILE509
ALYS720
AHOH886
AGLU273
ATHR278
AHIS279
AASN280
APHE283
AMET285
AGLU438
ALEU439

site_idAC2
Number of Residues5
Detailsbinding site for residue EDO A 702
ChainResidue
AILE28
AASN29
APRO32
ALEU153
AHOH897

site_idAC3
Number of Residues5
Detailsbinding site for residue EDO A 703
ChainResidue
APHE76
AILE120
AGLU121
ALEU124
ALEU126

site_idAC4
Number of Residues6
Detailsbinding site for residue EDO A 704
ChainResidue
AARG203
AGLU213
AGLU215
BLEU199
BARG203
BEDO703

site_idAC5
Number of Residues5
Detailsbinding site for residue EDO A 705
ChainResidue
ALEU219
AGLN220
ATHR221
AEDO718
BPHE515

site_idAC6
Number of Residues4
Detailsbinding site for residue EDO A 706
ChainResidue
AILE474
AASP475
AGLU476
AGLU477

site_idAC7
Number of Residues3
Detailsbinding site for residue EDO A 707
ChainResidue
AMET343
AASP392
AGLU431

site_idAC8
Number of Residues4
Detailsbinding site for residue EDO A 708
ChainResidue
ATYR205
AASN304
AARG311
BPRO467

site_idAC9
Number of Residues5
Detailsbinding site for residue EDO A 709
ChainResidue
AMET299
AGLU303
APRO337
ATRP338
AARG340

site_idAD1
Number of Residues6
Detailsbinding site for residue SO4 A 710
ChainResidue
ATYR350
ALYS398
ALEU399
AILE400
AALA401
AHIS403

site_idAD2
Number of Residues3
Detailsbinding site for residue SO4 A 711
ChainResidue
ALYS437
AGLU438
AARG498

site_idAD3
Number of Residues6
Detailsbinding site for residue EDO A 712
ChainResidue
ALEU450
AARG453
ACYS483
BTYR7
BLEU8
BTYR13

site_idAD4
Number of Residues7
Detailsbinding site for residue PEG A 713
ChainResidue
AGLY224
AGLY225
AALA226
AGLU227
AGLN459
AASP475
ASO4715

site_idAD5
Number of Residues4
Detailsbinding site for residue EDO A 714
ChainResidue
ALYS66
AVAL67
AARG68
AGLU133

site_idAD6
Number of Residues7
Detailsbinding site for residue SO4 A 715
ChainResidue
AALA226
AGLU227
ATHR412
AARG429
AASN441
ATYR443
APEG713

site_idAD7
Number of Residues4
Detailsbinding site for residue EDO A 716
ChainResidue
AHIS10
AASP12
AILE159
ASER160

site_idAD8
Number of Residues4
Detailsbinding site for residue SO4 A 717
ChainResidue
AASP207
ASER210
APHE211
ALEU212

site_idAD9
Number of Residues5
Detailsbinding site for residue EDO A 718
ChainResidue
BPHE515
AGLN220
AALA251
ALYS254
AEDO705

site_idAE1
Number of Residues1
Detailsbinding site for residue EDO A 719
ChainResidue
AARG197

site_idAE2
Number of Residues14
Detailsbinding site for residue LYS A 720
ChainResidue
AGLY225
AALA226
ASER247
AGLU249
AARG271
AGLU287
ATYR289
AASN441
ATYR443
AGLU445
AGLY491
AGLY493
AFYB701
AHOH864

site_idAE3
Number of Residues8
Detailsbinding site for residue EDO B 701
ChainResidue
ATYR7
ALEU8
ATYR13
BPRO449
BLEU450
BARG453
BLEU479
BCYS483

site_idAE4
Number of Residues18
Detailsbinding site for residue FYB B 702
ChainResidue
BARG271
BGLU273
BTHR278
BHIS279
BASN280
BPHE283
BMET285
BGLU438
BLEU439
BASN441
BGLY493
BILE494
BGLY495
BARG498
BILE509
BLYS724
BHOH831
BHOH882

site_idAE5
Number of Residues5
Detailsbinding site for residue EDO B 703
ChainResidue
ALEU199
AARG203
AEDO704
BGLU213
BGLU215

site_idAE6
Number of Residues5
Detailsbinding site for residue EDO B 704
ChainResidue
APHE515
BGLN220
BALA251
BLYS254
BEDO707

site_idAE7
Number of Residues5
Detailsbinding site for residue EDO B 705
ChainResidue
BPHE76
BILE120
BGLU121
BLEU124
BHOH841

site_idAE8
Number of Residues5
Detailsbinding site for residue EDO B 706
ChainResidue
BPRO162
BASP170
BARG174
BALA180
BHOH893

site_idAE9
Number of Residues5
Detailsbinding site for residue EDO B 707
ChainResidue
APHE515
BLEU219
BTHR221
BEDO704
BHOH905

site_idAF1
Number of Residues4
Detailsbinding site for residue EDO B 708
ChainResidue
BGLU273
BGLY274
BASP276
BHIS279

site_idAF2
Number of Residues3
Detailsbinding site for residue SO4 B 709
ChainResidue
BLYS437
BGLU438
BARG498

site_idAF3
Number of Residues2
Detailsbinding site for residue EDO B 710
ChainResidue
BASP392
BGLU431

site_idAF4
Number of Residues6
Detailsbinding site for residue EDO B 711
ChainResidue
BLEU410
BGLU411
BTHR413
BPRO414
BLEU455
BGLN459

site_idAF5
Number of Residues3
Detailsbinding site for residue SO4 B 712
ChainResidue
BARG61
BGLY167
BLEU168

site_idAF6
Number of Residues3
Detailsbinding site for residue EDO B 713
ChainResidue
BASP187
BTHR191
BTHR504

site_idAF7
Number of Residues6
Detailsbinding site for residue EDO B 714
ChainResidue
BASP276
BARG277
BSER508
BARG510
BHOH834
BHOH872

site_idAF8
Number of Residues10
Detailsbinding site for residue PG4 B 715
ChainResidue
BGLY224
BGLY225
BGLU227
BILE250
BTHR412
BARG429
BTYR443
BGLN459
BASP475
BHOH829

site_idAF9
Number of Residues5
Detailsbinding site for residue SO4 B 716
ChainResidue
BTYR350
BLYS398
BILE400
BALA401
BHIS403

site_idAG1
Number of Residues3
Detailsbinding site for residue EDO B 717
ChainResidue
BGLU368
BTHR371
BLEU373

site_idAG2
Number of Residues5
Detailsbinding site for residue PEG B 718
ChainResidue
BARG277
BTYR322
BLEU325
BLYS437
BALA507

site_idAG3
Number of Residues6
Detailsbinding site for residue EDO B 719
ChainResidue
BHIS10
BASP12
BTYR13
BILE159
BSER160
BHOH903

site_idAG4
Number of Residues5
Detailsbinding site for residue EDO B 720
ChainResidue
AARG420
AHOH941
BPRO32
BTYR33
BGLN34

site_idAG5
Number of Residues5
Detailsbinding site for residue EDO B 721
ChainResidue
BMET299
BGLU303
BPRO337
BTRP338
BARG340

site_idAG6
Number of Residues2
Detailsbinding site for residue EDO B 722
ChainResidue
BASP423
BHOH900

site_idAG7
Number of Residues2
Detailsbinding site for residue EDO B 723
ChainResidue
BARG61
BGLU63

site_idAG8
Number of Residues12
Detailsbinding site for residue LYS B 724
ChainResidue
BGLY225
BALA226
BSER247
BGLU249
BARG271
BGLU287
BTYR289
BASN441
BTYR443
BGLU445
BFYB702
BHOH831

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsBinding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_00252","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

246704

PDB entries from 2025-12-24

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