Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1781 |
| PDBID: | 5USH |
| Chains: | DE_A |
| Organism: | Vaccinia virus, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.30 |
| Reference: | 10.1074/jbc.M117.814541 |
| Antibody | |
| Antibody: | vv66 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Vaccinia virus (VACV) envelope protein D8 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: D
Mutation: NULL
| >5USH_D|Chain B[auth D], D[auth H]|Fab vv66 heavy chain|Homo sapiens (9606) QLQLQESGPGLVKPSETLSLTCTISGDSISSNNYYWGWIRQPPGKGLEWIGSIYYSGSTYYNPSLKSRVTISVDTSKNQFSLKLSSVTAADTAVYYCARHRRVLLWFGEFQLWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPK |
Light Chain: E
Mutation: NULL
| >5USH_E|Chain C[auth E], E[auth L]|Fab vv66 light chain|Homo sapiens (9606) QSALTQPPSVSGAPGQRVTISCTGSSSNIGAGYDVHWYQQLPGTAPKLLIYGNINRPSGVPDRFSGSKSGTSASLAITGLQAEDEADYYCQSYDSSLSGALFGGGTQLTVLGQPKANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAP |
Antigen
Chain: A
Mutation: NULL
| >5USH_A|Chain A, F[auth X]|IMV membrane protein|Vaccinia virus (10245) MPQQLSPINIETKKAISNARLKPLDIHYNESKPTTIQNTGKLVRINFKGGYISGGFLPNEYVLSSLHIYWGKEDDYGSNHLIDVYKYSGEINLVHWNKKKYSSYEEAKKHDDGLIIISIFLQVLDHKNVYFQKIVNQLDSIRSANTSAPFDSVFYLDNLLPSKLDYFTYLGTTINHSADAVWIIFPTPINIHSDQLSKFRTLLSLSNHEGKPHYITENYRNPYKLNDDTEVYYSGHHHHHH |
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)
| D: SER30 SER31 ASN32 ASN33 TYR34 TYR35 TYR54 TYR55 SER56 SER58 TYR60 ARG101 ARG102 VAL103 LEU104 LEU105 TRP106 E: ALA31 GLY32 TYR33 ASP34 ASN53 LYS68 SER95 A: GLN3 GLN4 ASN18 ALA19 ARG20 LEU21 PHE56 PRO58 TYR61 TYR101 LYS109 HIS110 ASP111 ASP112 ILE115 THR168 TYR169 LEU170 GLY171 ASP179 VAL181 ASN226 ASP228 THR229 GLU230 TYR232 |
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)
