Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1677 |
| PDBID: | 5TH9 |
| Chains: | JN_C |
| Organism: | Oryctolagus cuniculus, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.00 |
| Reference: | 10.1074/jbc.M116.760579 |
| Antibody | |
| Antibody: | GS-5745 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | Andecaliximab(Phase-III) |
| Antigen | |
| Antigen: | Matrix metalloproteinase-9 |
| Antigen mutation: | No |
| Durg Target: | P14780 |
Sequence information
Antibody
Heavy Chain: J
Mutation: NULL
| >5TH9_J|Chain B[auth H], E[auth I], H[auth J]|GS-5745 Fab heavy chain|Oryctolagus cuniculus (9986) QVQLQESGPGLVKPSETLSLTCTVSGFSLLSYGVHWVRQPPGKGLEWLGVIWTGGTTNYNSALMSRFTISKDDSKNTVYLKMNSLKTEDTAIYYCARYYYGMDYWGQGTLVTVSSASTKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTKTYTCNVDHKPSNTKVDKRVESKYGPPCPPCPAPEFL |
Light Chain: N
Mutation: NULL
| >5TH9_N|Chain A[auth L], D[auth M], G[auth N]|GS-5745 Fab light chain|Oryctolagus cuniculus (9986) DIQMTQSPSSLSASVGDRVTITCKASQDVRNTVAWYQQKPGKAPKLLIYSSSYRNTGVPDRFSGSGSGTDFTLTISSLQAEDVAVYYCQQHYITPYTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: C
Mutation: NULL
| >5TH9_C|Chain C[auth A], F[auth B], I[auth C]|Matrix metalloproteinase-9,Matrix metalloproteinase-9|Homo sapiens (9606) MATDRQLAEEYLYRYGYTRVAEMRGESKSLGPALLLLQKQLSLPETGELDSATLKAMRTPRCGVPDLGRFQTFEGDLKWHHHNITYWIQNYSEDLPRAVIDDAFARAFALWSAVTPLTFTRVYSRDADIVIQFGVAEHGDGYPFDGKDGLLAHAFPPGPGIQGDAHFDDDELWSLGKGQGYSLFLVAAHEFGHALGLDHSSVPEALMYPMYRFTEGPPLHKDDVNGIRHLY |
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)
| N: ARG30 ASN31 THR32 LEU46 TYR49 SER50 TYR53 ASN55 THR56 HIS91 TYR92 THR94 TYR96 J: SER28 LEU30 SER31 TYR32 GLY33 TRP52 THR53 GLY54 THR56 ASN58 ASP73 ARG97 TYR98 TYR99 TYR100 ASP103 C: PHE107 GLN108 THR109 PHE110 GLU111 TRP124 ILE125 GLN126 ASN127 TYR160 SER161 ARG162 ASP163 ALA164 VAL167 GLN169 GLY171 VAL172 GLU174 HIS175 GLY176 ASP177 GLY178 TYR179 PRO196 GLY197 ILE198 GLN199 ASP201 HIS203 |
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)
