Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1874 |
| PDBID: | 5W1M |
| Chains: | BA_R |
| Organism: | Homo sapiens, Mammarenavirus machupoense |
| Method: | XRD |
| Resolution (Å): | 3.91 |
| Reference: | 10.1038/s41467-018-04271-z |
| Antibody | |
| Antibody: | CR1-07 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Mammarenavirus machupoense GP |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: B
Mutation: NULL
| >5W1M_B|Chain B, D, F, H|CR1-07 Fab heavy chain|Homo sapiens (9606) VQLVESGGGVVHPGRSLRLSCAASGFTFGTSIMHWVRQAPGKGMQWVAQISHDESRKFYSDSVKGRFTVSRDNSKNTLFLEMSSLRIEDTAVYYCAKDLSPPYSYAWDIFQYWGQGSLVTVSGASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSC |
Light Chain: A
Mutation: NULL
| >5W1M_A|Chain A, C, E, G|CR1-07 Fab light chain|Homo sapiens (9606) DIVMTQSPESLAVSLGERATINCKSSQSVLYSSRSDNKDYLAWYQQKPGQSPKLLIYWASTRESGVPERFTGSGSGTDFTLSISSLQAEDVAVYYCQQYYSSPPTFGGGTKVELKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGE |
Antigen
Chain: R
Mutation: NULL
| >5W1M_R|Chain I[auth Q], J[auth R], K[auth S], L[auth T]|Pre-glycoprotein polyprotein GP complex|Machupo virus (3052317) ELPSLCMLNNSFYYMRGGVNTFLIRVSDISVLMKEYDVSIYEPEDLGNCLNKSDSSWAIHWFSNALGHDWLMDPPMLCRNKTKKEGSNIQFNISKADDARVYGKKIRNGMRHLFRGFHDPCEEGKVCYLTINQCGDPSSFDYCGVNHLSKCQ |
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)
| A: ASP1 TYR31 SER33 ARG34 ASP36 LYS38 TYR40 TRP58 TYR99 TYR100 SER101 SER102 PRO103 B: GLN50 SER56 ARG57 PHE59 PRO102 PRO103 TYR104 SER105 TYR106 ALA107 TRP108 ASP109 R: ARG111 ILE115 SER116 VAL117 LEU118 MET119 LYS120 GLU121 TYR122 ASP123 VAL124 SER125 TYR127 ARG165 ASN166 THR168 LYS169 LYS170 GLU171 ASN174 PRO223 SER224 PHE226 |
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)
