Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 663 |
| PDBID: | 3U9P |
| Chains: | HL_D |
| Organism: | Mus musculus, Rattus norvegicus |
| Method: | XRD |
| Resolution (Å): | 2.80 |
| Reference: | 10.1371/journal.pone.0043696 |
| Antibody | |
| Antibody: | 3U9P Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Neutrophil gelatinase-associated lipocalin |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >3U9P_H|Chain C[auth H], D[auth K]|Monoclonal Fab Fragment Heavy Chain|Rattus norvegicus (10116) EVKLQESGPSLVQPSQTLSLTCTVSGFSLTSNSVHWVRQPPGQGLEWMGGIWGDGRTDYNSALKSRLSISRDTSKSQVFLKMNSLQTDDTAIYFCTRCRRDSSYVVDAWGQGASVTVSSAKTTPKLVYPLAPGCGDTTSSTVTLGCLVKGYFPEPVTVTWNSGALSSDVHTFPAVLQSGLYTLTSSVTSSTWPSQTVTCNVAHPASSTKVDKKLER |
Light Chain: L
Mutation: NULL
| >3U9P_L|Chain E[auth L], F[auth M]|Monoclonal Fab Fragment Light Chain|Rattus norvegicus (10116) DILMTQSPLSLSASLGDKVTITCQASQIIYNYIAWYQQKPGKAPRLLIRYTSTLESGTPSRFSGSGSGRDYSFSISNVESEDIASYYCLQYDNLPYMFGAGTKLELKRADAAPTVSIFPPSSEQLATGGASVVCFVNNFYPRDISVKWKIDGTERRDGVLDSVTDQDSKDSTYSMSSTLSLTKVDYERHNLYTCEVVHKTSSSPVVKSFNRN |
Antigen
Chain: D
Mutation: NULL
| >3U9P_D|Chain A[auth C], B[auth D]|Neutrophil gelatinase-associated lipocalin|Mus musculus (10090) GSQDSTQNLIPAPSLLTVPLQPDFRSDQFRGRWYVVGLAGNAVQKKTEGSFTMYSTIYELQENNSYNVTSILVRDQDQGCRYWIRTFVPSSRAGQFTLGNMHRYPQVQSYNVQVATTDYNQFAMVFFRKTSENKQYFKITLYGRTKELSPELKERFTRFAKSLGLKDDNIIFSVPTDQCIDN |
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)
| Chain residues position delta_SASA
: residuesposition H: TRP52 ARG56 ASP58 ARG100 SER103 TYR104 L: ASP1 GLN27 ILE28 TYR30 TYR32 TYR50 TYR91 ASP92 ASN93 LEU94 PRO95 TYR96 D: PRO3 ALA4 PRO5 SER6 LEU7 LEU8 THR9 PRO14 SER82 SER83 ARG84 GLN87 THR89 MET93 GLN100 SER101 ASN103 ARG120 LYS121 THR122 GLN127 |
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)
