Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1779 |
| PDBID: | 5USF |
| Chains: | C_B |
| Organism: | Leishmania donovani BPK282A1, Lama glama |
| Method: | XRD |
| Resolution (Å): | 2.75 |
| Reference: | 10.1016/j.biochi.2017.04.006 |
| Antibody | |
| Antibody: | 5USF Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Tyrosyl-tRNA synthetase |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: C
Mutation: NULL
| >5USF_C|Chain C, D|Immunoglobulin heavy chain variable region|Lama glama (9844) QVQLQESGGGLVLPGGSLRLSCATSGFTFSNSWMYWVRQAPGKGLEWVSRINAGGNTVDYKDSVKGRFSISRDNAKNTLYLQMNSLKPEDTAVYYCARGLNRYAYDSRGQGTQVTVSSHHHHHHEPEA |
Antigen
Chain: B
Mutation: NULL
| >5USF_B|Chain A, B|Tyrosyl-tRNA synthetase, putative|Leishmania donovani (strain BPK282A1) (981087) GPGSMNTDERYKLLRSVGEECIQESELRNLIEKKPLIRCYDGFEPSGRMHIAQGIFKAVNVNKCTAAGCEFVFWVADWFALMNDKVGGELEKIRIVGRYLIEVWKAAGMDTDKVLFLWSSEEITSHADTYWRMVLDIGRQNTIARIKKCCTIMGKTEGTLTAAQVLYPLMQCCDIFFLKADICQLGLDQRKVNMLAREYCDLIGRKLKPVILSHHMLAGLRRGQAKMSKSDPDSAIFMEDTEEDVARKIRQAYCPRVKQSASAITDDGAPVATDDRNPVLDYFQCVVYARPGAVAAIDGTTYATYEDLEQAFVSDEVSEDALKSCLIDEVNALLAPVRQHFASNEEAHELLEAVKSYRKGGATLPLAETALPAAPEKPHACMWMPALLKVPLDVAEGMIKATEDFIAAHPGGTVTVVLPDWSAVASDEITGVEKDISAALQVNCALLKAYGLPNSVKIVTENEVILGNRNDFWVSVIGIARKNLLSHIEELYGGELRNAGQVIAALMRVATALMLSVSHVISTSLDGHINAFAREYTKERIECVQTLEGRIPALHRPGAAPAVLGADDVLYLDDNDMDIRRKIKKAYSAPNEEANPVISVAQHLLAQHGALNIERGEANGGNVSYNTPEALVADCGSGALHPADLKAAVLQLLLDRSAQARALLNGELKKNMTALRNAEKKMAKRR |
Interaction
1、Solvent accessible surface areas (SASA) were calculated (Naccess V2.1.1) for each residue in antibody and antigen, respectively. The residues with SASA loss in binding of more than 1Å2 were classified as interacting residues.
Interacting residues (ΔSASA based)
| C: ARG19 THR28 SER30 ASN31 TRP33 TRP47 ARG50 ILE51 ASN52 ALA53 GLY54 GLY55 ASN56 THR57 VAL58 TYR60 LYS65 GLY66 ARG67 PHE68 SER69 ILE70 SER71 ARG72 ASP73 ASN74 ALA75 LYS76 TYR80 GLN82 ASN101 ARG102 TYR103 B: PRO387 ASP389 VAL390 GLU486 LEU487 TYR488 GLY489 GLU491 SER520 LEU521 GLY523 HIS524 ALA527 GLN541 THR542 LEU543 GLU544 GLY545 ILE547 PRO548 ALA549 HIS551 PRO553 GLY554 ALA555 ALA556 PRO557 ALA558 VAL559 LEU560 VAL565 TYR567 ALA590 ASN591 SER595 GLN598 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 5Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 5 Å from any atom.
Interacting residues (Atom distance based)
