Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2168 |
| PDBID: | 6DZY |
| Chains: | V_A |
| Organism: | Homo sapiens, Mus musculus |
| Method: | EM |
| Resolution (Å): | 4.10 |
| Reference: | 10.1038/s41586-019-1135-1 |
| Antibody | |
| Antibody: | 8B6 scFv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Sodium-dependent serotonin transporter |
| Antigen mutation: | No |
| Durg Target: | P31645; P31645; |
Sequence information
Antibody
Chain: V
Mutation: NULL
| >6DZY_V|Chain D[auth V]|8B6 antibody single chain|Mus musculus (10090) EVQLQQSGPELVKPGASVKISCKASGYTFTDYYMNWVKQSHGKSLEWIGNINPNNGGTSYNQKFKGKATLTVDKSSTTAYMELRSLTSEDSAVYYCTRSPVRPYYFDYWGQGTTLTVXXXXXXXXXXXXXXXXXDIVMTQSHKFMSTSVGDRVSITCKASQDVSTAVAWYQQKPGQSPKLLIYSASYRYTGVPDRFTGSGSGTDFTFTISSVQAEDLAVYYCQQHYSIPRTFGGGTKLEI |
Antigen
Chain: A
Mutation: NULL
| >6DZY_A|Chain A|Sodium-dependent serotonin transporter|Homo sapiens (9606) RETWGKKVDFLLSVIGYAVDLGNVWRFPYICYQNGGGAFLLPYTIMAIFGGIPLFYMELALGQYHRNGCISIWRKICPIFKGIGYAICIIAFYIASYYNTIMAWALYYLISSFTDQLPWTSCKNSWNTGNCTNYFSEDNITWTLHSTSPAEEFYTRHVLQIHRSKGLQDLGGISWQLALCIMLIFTVIYFSIWKGVKTSGKVVWVTATFPYIALSVLLVRGATLPGAWRGVLFYLKPNWQKLLETGVWIDAAAQIFFSLGPGFGVLLAFASYNKFNNNCYQDALVTSVVNCMTSFVSGFVIFTVLGYMAEMRNEDVSEVAKDAGPSLLFITYAEAIANMPASTFFAIIFFLMLITLGLDSSFAGLEGVITAVLDEFPHVWAKRRERFVLAVVITCFFGSLVTLTFGGAYVVKLLEEYATGPAVLTVALIEAVAVSWFYGITQFCRDVKEMLGFSPGWFWRICWVAISPLFLLFIIASFLMSPPQLRLFQYNYPYWSIILGYAIGTSSFICIPTYIAYRLIITPGTFKERIIKSITPE |
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 V: TYR42 THR45 ASP46 TYR47 TYR48 ASN67 PRO68 ASN69 ASN70 SER74 ARG113 PRO115 VAL116 ARG117 PRO118 TYR119 TYR120 GLN176 ASP177 SER179 THR180 ALA181 TYR198 SER199 TYR202 GLY217 HIS240 TYR241 SER242 ILE243 A: PHE213 GLU215 ASP216 ILE218 THR219 TRP220 THR221 LEU222 HIS223 TRP306 ARG307 LEU310 LYS314 ALA387 GLU388 ARG390 ASN391 GLU392 ASP393 VAL394 SER395 GLU396 VAL397 LYS399 ARG564 GLN567 ASN569 |
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)
