Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1004 |
| PDBID: | 4V1D |
| Chains: | DE_C |
| Organism: | Homo sapiens, Centruroides noxius |
| Method: | XRD |
| Resolution (Å): | 3.10 |
| Reference: | 10.1074/jbc.M115.685297 |
| Antibody | |
| Antibody: | RU1 Fv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Cn2 toxin from scorpion Centruroides noxius |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: D
Mutation: NULL
| >4V1D_D|Chain D|SINGLE CHAIN ANTIBODY FRAGMENT RU1, HEAVY CHAIN|HOMO SAPIENS (9606) QVNLRESGGGLVQPGGSLRLSCAASGFSFGSYGMHWVRQAPGKGLEWVAVISYGGGNKYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCAKDARDCLLCADWHFDLWGRGTLVTVSS |
Light Chain: E
Mutation: NULL
| >4V1D_E|Chain E|SINGLE CHAIN ANTIBODY FRAGMENT RU1, LIGHT CHAIN|HOMO SAPIENS (9606) GGGGSGGGGSGGGGSNFMLTQPHSASGTPGQRVTISCSGSSSNIGSNTVNWYRHLPGSAPELLIGSHNQRPSGVPDRFSASKSDTSASLAISGLQSEDEADYYCAAWDDSLIGYVFGTGTKLTVLGAAAEQKLISEEDLNGAAHHHHHH |
Antigen
Chain: C
Mutation: NULL
| >4V1D_C|Chain C|BETA-MAMMAL TOXIN CN2|CENTRUROIDES NOXIUS (6878) KEGYLVDKNTGCKYECLKLGDNDYCLRECKQQYGKGAGGYCYAFACWCTHLYEQAIVWPLPNKRCS |
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: SER31 SER52 TYR53 GLY54 GLY56 ASN57 LYS58 TYR59 TYR60 LYS65 ARG101 ASP102 CYS103 LEU104 LEU105 CYS106 ALA107 ASP108 E: TRP231 ASP233 SER234 ILE236 C: VAL6 ASP7 LYS8 ASN9 TYR14 GLU28 LYS30 GLN31 GLN32 TYR33 GLY34 LYS35 TYR52 GLN54 ALA55 ILE56 LEU60 PRO61 ASN62 LYS63 |
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)
