Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1464 |
| PDBID: | 5JQ6 |
| Chains: | HL_A |
| Organism: | Staphylococcus aureus, Mus musculus, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.40 |
| Reference: | 10.1016/j.ebiom.2016.09.027 |
| Antibody | |
| Antibody: | Tefibazumab Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Clumping factor A |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >5JQ6_H|Chain B[auth H]|Tefibazumab FAB FRAGMENT HEAVY CHAIN|Mus musculus (10090) QVQLKESGPGLVKPSQTLSITCTISGFSLSRYSVHWVRQPPGKGLEWLGMIWGGGNTDYNSALKSRLSISKDNSKNQVFLKMNSLTAADTAVYYCARKGEFYYGYDGFVYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRAEPK |
Light Chain: L
Mutation: NULL
| >5JQ6_L|Chain C[auth L]|Tefibazumab FAB FRAGMENT LIGHT CHAIN|Mus musculus (10090) DIVMTQSPDSLAVSLGERVTMNCKSSQSVLYSSNQKNYLAWYQQKPGQSPKLLIYWASTRESGVPDRFSGSGSGTDFTLTISSVQAEDLAVYYCHQYLSSYTFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSANR |
Antigen
Chain: A
Mutation: NULL
| >5JQ6_A|Chain A|Clumping factor A|Staphylococcus aureus (1280) MRGSHHHHHHGSGTDITNQLTNVTVGIDSGTTVYPHQAGYVKLNYGFSVPNSAVKGDTFKITVPKELNLNGVTSTAKVPPIMAGDQVLANGVIDSDGNVIYTFTDYVNTKCDVKATLTMPAYIDPENVKKTGNVTLATGIGSTTANKTVLVDYEKYGKFYNLSIKGTIDQIDKTNNTYRQTIYVNPSGDNVIAPVLTGNLKPNTDSNALIDQQNTSIKVYKVDNAADLSESYFVNPENFEDVTNSVNITFPNPNQYKVEFNTPDDQITTPYIVVVNGHIDPNSKGDLALRSTLYGYNSNIIWRSMSWDNEVAFNNGSGSGDGIDCPVVP |
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)
| Chain residues position delta_SASA
: residuesposition H: SER30 ARG31 MET50 TRP52 GLY53 GLY54 ASN56 ASP58 TYR59 LYS98 PHE101 GLY104 TYR105 ASP106 L: ILE2 GLN27 SER28 TYR31 SER32 SER33 ASN34 LYS36 TYR38 TYR97 LEU98 SER99 SER100 TYR101 A: ILE408 ALA409 VAL411 THR413 GLN428 GLN429 THR431 SER432 ILE433 LYS434 THR459 ASN460 VAL462 ASN463 ILE464 THR465 PHE466 PRO467 ASN468 LYS473 GLU475 ASN477 THR478 PRO479 ASP480 ASP481 TYR510 TYR512 ILE516 TRP518 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 6 Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 6 Å from any atom.
Interacting residues (Atom distance based)
