6OTJ
Crystal Structure of Tyrosyl-tRNA synthetase from Neisseria gonorrhoeae with bound L-Tyr
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000166 | molecular_function | nucleotide binding |
| A | 0003723 | molecular_function | RNA binding |
| A | 0004812 | molecular_function | aminoacyl-tRNA ligase activity |
| A | 0004831 | molecular_function | tyrosine-tRNA ligase activity |
| A | 0005524 | molecular_function | ATP binding |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005829 | cellular_component | cytosol |
| A | 0006412 | biological_process | translation |
| A | 0006418 | biological_process | tRNA aminoacylation for protein translation |
| A | 0006437 | biological_process | tyrosyl-tRNA aminoacylation |
| A | 0016874 | molecular_function | ligase activity |
| A | 0042803 | molecular_function | protein homodimerization activity |
| A | 0043039 | biological_process | tRNA aminoacylation |
| B | 0000166 | molecular_function | nucleotide binding |
| B | 0003723 | molecular_function | RNA binding |
| B | 0004812 | molecular_function | aminoacyl-tRNA ligase activity |
| B | 0004831 | molecular_function | tyrosine-tRNA ligase activity |
| B | 0005524 | molecular_function | ATP binding |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005829 | cellular_component | cytosol |
| B | 0006412 | biological_process | translation |
| B | 0006418 | biological_process | tRNA aminoacylation for protein translation |
| B | 0006437 | biological_process | tyrosyl-tRNA aminoacylation |
| B | 0016874 | molecular_function | ligase activity |
| B | 0042803 | molecular_function | protein homodimerization activity |
| B | 0043039 | biological_process | tRNA aminoacylation |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 12 |
| Details | binding site for residue TYR A 501 |
| Chain | Residue |
| A | TYR34 |
| A | GLN197 |
| A | HOH601 |
| A | HOH602 |
| A | GLY36 |
| A | ASP38 |
| A | LEU68 |
| A | ASP78 |
| A | TYR171 |
| A | GLN175 |
| A | ASP178 |
| A | GLU191 |
| site_id | AC2 |
| Number of Residues | 4 |
| Details | binding site for residue SO4 A 502 |
| Chain | Residue |
| A | LYS82 |
| A | ALA83 |
| A | ALA84 |
| A | EDO517 |
| site_id | AC3 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 A 503 |
| Chain | Residue |
| A | THR106 |
| A | PRO107 |
| site_id | AC4 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 A 504 |
| Chain | Residue |
| A | ARG56 |
| A | HOH613 |
| site_id | AC5 |
| Number of Residues | 3 |
| Details | binding site for residue EDO A 505 |
| Chain | Residue |
| A | SER195 |
| A | ASP196 |
| A | HOH611 |
| site_id | AC6 |
| Number of Residues | 1 |
| Details | binding site for residue SO4 A 506 |
| Chain | Residue |
| A | ASN243 |
| site_id | AC7 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 A 507 |
| Chain | Residue |
| A | ALA260 |
| A | ASP261 |
| site_id | AC8 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 A 508 |
| Chain | Residue |
| A | LEU274 |
| A | GLU302 |
| site_id | AC9 |
| Number of Residues | 4 |
| Details | binding site for residue SO4 A 509 |
| Chain | Residue |
| A | ARG56 |
| A | GLN60 |
| A | PHE273 |
| A | SO4510 |
| site_id | AD1 |
| Number of Residues | 3 |
| Details | binding site for residue SO4 A 510 |
| Chain | Residue |
| A | ARG56 |
| A | PRO107 |
| A | SO4509 |
| site_id | AD2 |
| Number of Residues | 2 |
| Details | binding site for residue EDO A 511 |
| Chain | Residue |
| A | GLU310 |
| A | GLU311 |
| site_id | AD3 |
| Number of Residues | 3 |
| Details | binding site for residue SO4 A 512 |
| Chain | Residue |
| A | ARG318 |
| A | ARG330 |
| A | HOH604 |
| site_id | AD4 |
| Number of Residues | 3 |
| Details | binding site for residue SO4 A 513 |
| Chain | Residue |
| A | THR332 |
| A | GLU333 |
| A | SER334 |
| site_id | AD5 |
| Number of Residues | 5 |
| Details | binding site for residue SO4 A 514 |
| Chain | Residue |
| A | THR40 |
| A | HIS48 |
| A | ARG86 |
| A | EDO518 |
| A | HOH606 |
| site_id | AD6 |
| Number of Residues | 1 |
| Details | binding site for residue EDO A 515 |
| Chain | Residue |
| A | ARG102 |
| site_id | AD7 |
| Number of Residues | 2 |
| Details | binding site for residue EDO A 516 |
| Chain | Residue |
| A | ARG102 |
| A | ASN121 |
| site_id | AD8 |
| Number of Residues | 2 |
| Details | binding site for residue EDO A 517 |
| Chain | Residue |
| A | ARG86 |
| A | SO4502 |
| site_id | AD9 |
| Number of Residues | 4 |
| Details | binding site for residue EDO A 518 |
| Chain | Residue |
| A | HIS45 |
| A | GLY47 |
| A | LYS231 |
| A | SO4514 |
| site_id | AE1 |
| Number of Residues | 4 |
| Details | binding site for residue EDO A 519 |
| Chain | Residue |
| A | MET129 |
| A | ASP133 |
| A | ASP137 |
| A | TYR177 |
| site_id | AE2 |
| Number of Residues | 3 |
| Details | binding site for residue SO4 A 520 |
| Chain | Residue |
| A | THR235 |
| A | GLU236 |
| A | LYS258 |
| site_id | AE3 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 A 521 |
| Chain | Residue |
| A | ALA239 |
| A | TRP241 |
| site_id | AE4 |
| Number of Residues | 2 |
| Details | binding site for residue EDO A 522 |
| Chain | Residue |
| A | GLU294 |
| A | ARG297 |
| site_id | AE5 |
| Number of Residues | 4 |
| Details | binding site for residue SO4 A 523 |
| Chain | Residue |
| A | ASN383 |
| A | GLU408 |
| A | TYR409 |
| A | HOH603 |
| site_id | AE6 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 A 524 |
| Chain | Residue |
| A | THR230 |
| A | LYS231 |
| site_id | AE7 |
| Number of Residues | 4 |
| Details | binding site for residue EDO A 525 |
| Chain | Residue |
| A | HIS45 |
| A | GLY233 |
| A | ALA239 |
| A | VAL240 |
| site_id | AE8 |
| Number of Residues | 4 |
| Details | binding site for residue SO4 A 526 |
| Chain | Residue |
| A | GLN15 |
| A | TRP198 |
| A | LYS287 |
| A | ALA288 |
| site_id | AE9 |
| Number of Residues | 4 |
| Details | binding site for residue SO4 A 527 |
| Chain | Residue |
| A | LEU274 |
| A | GLU278 |
| A | VAL282 |
| A | ILE298 |
| site_id | AF1 |
| Number of Residues | 11 |
| Details | binding site for residue TYR B 501 |
| Chain | Residue |
| B | TYR34 |
| B | GLY36 |
| B | ASP38 |
| B | LEU68 |
| B | THR73 |
| B | ASP78 |
| B | TYR171 |
| B | GLN175 |
| B | ASP178 |
| B | GLN197 |
| B | HOH605 |
| site_id | AF2 |
| Number of Residues | 3 |
| Details | binding site for residue SO4 B 502 |
| Chain | Residue |
| B | ALA84 |
| B | LYS82 |
| B | ALA83 |
| site_id | AF3 |
| Number of Residues | 2 |
| Details | binding site for residue EDO B 503 |
| Chain | Residue |
| B | LYS82 |
| B | ARG86 |
| site_id | AF4 |
| Number of Residues | 2 |
| Details | binding site for residue EDO B 504 |
| Chain | Residue |
| B | SER195 |
| B | ASP196 |
| site_id | AF5 |
| Number of Residues | 4 |
| Details | binding site for residue SO4 B 505 |
| Chain | Residue |
| B | GLY237 |
| B | GLY238 |
| B | ALA239 |
| B | TRP241 |
| site_id | AF6 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 B 506 |
| Chain | Residue |
| B | ALA260 |
| B | ASP261 |
| site_id | AF7 |
| Number of Residues | 3 |
| Details | binding site for residue EDO B 507 |
| Chain | Residue |
| B | GLY309 |
| B | GLU310 |
| B | GLU311 |
| site_id | AF8 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 B 508 |
| Chain | Residue |
| B | ARG318 |
| B | ARG330 |
| site_id | AF9 |
| Number of Residues | 3 |
| Details | binding site for residue EDO B 509 |
| Chain | Residue |
| B | ALA314 |
| B | GLN317 |
| B | GLU321 |
| site_id | AG1 |
| Number of Residues | 3 |
| Details | binding site for residue SO4 B 510 |
| Chain | Residue |
| B | THR332 |
| B | GLU333 |
| B | SER334 |
| site_id | AG2 |
| Number of Residues | 3 |
| Details | binding site for residue EDO B 511 |
| Chain | Residue |
| B | LEU344 |
| B | PRO345 |
| B | ALA346 |
| site_id | AG3 |
| Number of Residues | 5 |
| Details | binding site for residue SO4 B 512 |
| Chain | Residue |
| B | THR40 |
| B | HIS48 |
| B | ARG86 |
| B | EDO513 |
| B | HOH601 |
| site_id | AG4 |
| Number of Residues | 4 |
| Details | binding site for residue EDO B 513 |
| Chain | Residue |
| B | HIS45 |
| B | LYS231 |
| B | SO4512 |
| B | HOH601 |
| site_id | AG5 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 B 514 |
| Chain | Residue |
| B | THR235 |
| B | GLU236 |
| site_id | AG6 |
| Number of Residues | 2 |
| Details | binding site for residue EDO B 515 |
| Chain | Residue |
| B | ARG56 |
| B | ASN115 |
| site_id | AG7 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 B 516 |
| Chain | Residue |
| B | THR106 |
| B | PRO107 |
| site_id | AG8 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 B 517 |
| Chain | Residue |
| B | GLY113 |
| B | GLY114 |
| site_id | AG9 |
| Number of Residues | 4 |
| Details | binding site for residue EDO B 518 |
| Chain | Residue |
| A | SER128 |
| A | ASN130 |
| B | SER128 |
| B | ASN130 |
| site_id | AH1 |
| Number of Residues | 3 |
| Details | binding site for residue EDO B 519 |
| Chain | Residue |
| B | MET129 |
| B | ASP137 |
| B | TYR177 |
| site_id | AH2 |
| Number of Residues | 2 |
| Details | binding site for residue EDO B 520 |
| Chain | Residue |
| B | GLU151 |
| B | TRP198 |
| site_id | AH3 |
| Number of Residues | 5 |
| Details | binding site for residue EDO B 521 |
| Chain | Residue |
| B | HIS45 |
| B | GLY233 |
| B | LYS234 |
| B | ALA239 |
| B | VAL240 |
| site_id | AH4 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 B 522 |
| Chain | Residue |
| B | ARG56 |
| B | LEU109 |
| site_id | AH5 |
| Number of Residues | 1 |
| Details | binding site for residue EDO B 523 |
| Chain | Residue |
| B | ARG209 |
Functional Information from PROSITE/UniProt
| site_id | PS00178 |
| Number of Residues | 11 |
| Details | AA_TRNA_LIGASE_I Aminoacyl-transfer RNA synthetases class-I signature. Pt.ADsLHIGHL |
| Chain | Residue | Details |
| A | PRO39-LEU49 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 18 |
| Details | Motif: {"description":"'HIGH' region"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 8 |
| Details | Motif: {"description":"'KMSKS' region"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 8 |
| Details | Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_02006","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
