Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3048 |
| PDBID: | 6VRK |
| Chains: | BC_A |
| Organism: | Homo sapiens, Mus musculus |
| Method: | EM |
| Resolution (Å): | 4.10 |
| Reference: | 10.7554/eLife.56427 |
| Antibody | |
| Antibody: | 8B6 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Sodium-dependent serotonin transporter |
| Antigen mutation: | No |
| Durg Target: | P31645 |
Sequence information
Antibody
Heavy Chain: B
Mutation: NULL
| >6VRK_B|Chain C[auth B]|8B6 antibody, heavy chain|Mus musculus (10090) EVQLQQSGPELVKPGASVKISCKASGYTFTDYYMNWVKQSHGKSLEWIGNINPNNGGTSYNQKFKGKATLTVDKSSTTAYMELRSLTSEDSAVYYCTRSPVRPYYFDYWGQGTTLTVSSAKTTPPSVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSGSLSSSVHTFPALLQSGLYTMSSSVTVPSSTWPSQTVTCSVAHPASSTTVDKKLEPSGP |
Light Chain: C
Mutation: NULL
| >6VRK_C|Chain B[auth C]|8B6 antibody, light chain|Mus musculus (10090) DIVMTQSHKFMSTSVGDRVSITCKASQDVSTAVAWYQQKPGQSPKLLIYSASYRYTGVPDRFTGSGSGTDFTFTISSVQAEDLAVYYCQQHYSIPRTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: A
Mutation: NULL
| >6VRK_A|Chain A|Sodium-dependent serotonin transporter|Homo sapiens (9606) METTPLNSQKQLSACEDGEDCQENGVLQKVVPTPGDKVESGQISNGYSAVPSPGAGDDTRHSIPATTTTLVAELHQGERETWGKKVDFLLSVIGYAVDLGNVWRFPYICYQNGGGAFLLPYTIMAIFGGIPLFYMELALGQYHRNGCISIWRKICPIFKGIGYAICIIAFYIASYYNTIMAWALYYLISSFTDQLPWTSCKNSWNTGNCTNYFSEDNITWTLHSTSPAEEFYTRHVLQIHRSKGLQDLGGISWQLALCIMLIFTVIYFSIWKGVKTSGKVVWVTATFPYIILSVLLVRGATLPGAWRGVLFYLKPNWQKLLETGVWIDAAAQIFFSLGPGFGVLLAFASYNKFNNNCYQDALVTSVVNCMTSFVSGFVIFTVLGYMAEMRNEDVSEVAKDAGPSLLFITYAEAIANMPASTFFAIIFFLMLITLGLDSTFAGLEGVITAVLDEFPHVWAKRRERFVLAVVITCFFGSLVTLTFGGAYVVKLLEEYATGPAVLTVALIEAVAVSWFYGITQFCRDVKEMLGFSPGWFWRICWVAISPLFLLFIICSFLMSPPQLRLFQYNYPYWSIILGYCIGTSSFICIPTYIAYRLIITPGTFKERIIKSITPETPTEIPCGDIRLNAV |
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)
| C: ASP48 VAL49 SER50 THR51 ALA52 TYR69 SER70 TYR73 TYR75 HIS111 TYR112 SER113 ILE114 ARG116 B: THR49 ASP50 TYR51 TYR52 ASN71 PRO72 ASN73 ASN74 PRO119 VAL120 ARG121 PRO122 TYR124 A: PHE213 GLU215 ASP216 ASN217 ILE218 THR219 TRP220 THR221 LEU222 HIS223 TRP306 ARG307 PHE311 LYS314 GLU388 ARG390 ASN391 GLU392 ASP393 SER395 GLU396 VAL397 LYS399 ARG564 GLN567 ASN569 |
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)
