Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6411 |
| PDBID: | 8IVX |
| Chains: | HL_A |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 1.90 |
| Reference: | 10.1126/scitranslmed.adf1128 |
| Antibody | |
| Antibody: | aNRP2-10 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Human neuropilin-2 (NRP2) |
| Antigen mutation: | No |
| Durg Target: | O60462 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >8IVX_H|Chain B[auth H]|Heavy chain of antibody 14V4 Fab fragment|Homo sapiens (9606) QVQLKQSGPGLVQPSQSLSITCTVSGFSLTSYGVHWVRQSPGKGLEWLGLIWSGGSTDYSPAFISRLSISEDNSKSQVFFKMNSLQADDTAIYFCARNSYSSGYYAMDYWGQGTSVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPRDCGGSHHHHHH |
Light Chain: L
Mutation: NULL
| >8IVX_L|Chain C[auth L]|Light chain of antibody 14V4 Fab fragment|Homo sapiens (9606) DIVMTQSQKFMSTTVGDRVSITCKASQNVGTAVAWYQQKPGQSPKLLIYSASNRYTGVPDRFTGSGSGTDFTLTISNMQSEDLADYFCQQYSSYPPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: A
Mutation: NULL
| >8IVX_A|Chain A|aNRP2-14|Homo sapiens (9606) HHHHHHENLYFQDPPCGGRLNSKDAGYITSPGYPQDYPSHQNCEWIVYAPEPNQKIVLNFNPHFEIEKHDCKYDFIEIRDGDSESADLLGKHCGNIAPPTIISSGSMLYIKFTSDYARQGAGFSLRYEIFKTGSEDCSKNFTSPNGTIESPGFPEKYPHNLDCTFTILAKPKMEIILQFLIFDLEHDPLQVGEGDCKYDWLDIWDGIPHVGPLIGKYCGTKTPSELRSSTGILSLTFHTDMAVAKDGFSARYYLVHQEPLENFQCNVPLGMESGRIANEQISASSTYSDGRWTPQQSRLHGDDNGWTPNLDSNKEYLQVDLRFLTMLTAIATQGAISRETQNGYYVKSYKLEVSTNGEDWMVYRHGKNHKVFQANNDATEVVLNKLHAPLLTRFVRIRPQTWHSGIALRLELFGCRVTDAPCSNMLGMLSGLIADSQISASSTQEYLWSPSAARLVSSRSGWFPRIPQAQPGEEWLQVDLGTPKTVKGVIIQGARGGDSITAVEARAFVRKFKVSYSLNGKDWEYIQDPRTQQPKLFEGNMHYDTPDIRRFDPIPAQYVRVYPERWSPAGIGMRLEVLGCDWT |
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)
| H: SER28 THR30 SER31 TRP52 SER53 GLY54 GLY55 SER56 THR57 ASP58 GLU71 ASN73 SER74 SER76 TYR100 SER101 SER102 GLY103 TYR104 TYR105 L: ASN28 GLY30 THR31 ALA32 TYR91 SER92 SER93 TYR94 A: PHE153 PRO154 GLU155 GLN178 PHE179 LEU180 ILE181 PHE182 ASP183 THR220 LYS221 THR222 PRO223 SER224 GLU225 ARG227 SER249 ARG251 GLU272 SER273 GLY274 ARG275 ALA277 ASN278 GLN295 GLN296 ARG298 HIS300 GLY301 ASP302 ASP303 |
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)
