Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3268 |
| PDBID: | 6YMQ |
| Chains: | C_H |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.07 |
| Reference: | 10.1016/j.str.2021.06.010 |
| Antibody | |
| Antibody: | ScFv4 scFv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Triggering receptor expressed on myeloid cells 2 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: C
Mutation: NULL
| >6YMQ_C|Chain A, B, C, D, K[auth E], L[auth F]|Single-chain variable 4|Homo sapiens (9606) SMEVQLLESGGGLVQPGGSLRLSCAASGFTFSYYYMGWVRQAPGKGLEWVSGISPSSGYTYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCARYYYGYYYSHMDYWGQGTLVTVSSGGGGSGGGGSGGGGSDIQMTQSPSSLSASVGDRVTITCRASQSISSYLNWYQQKPGKAPKLLIYAASSLQSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQSRSGLHTFGQGTKLEIK |
Antigen
Chain: H
Mutation: NULL
| >6YMQ_H|Chain E[auth D000], F[auth G], G[auth H], H[auth I], I[auth J], J[auth K]|Triggering receptor expressed on myeloid cells 2|Homo sapiens (9606) ETGHNTTVFQGVAGQSLQVSCPYDSMKHWGRRKAWCRQLGEKGPCQRVVSTHNLWLLSFLRRWNGSTAITDDTLGGTLTITLRNLQPHDAGLYQCQSLHGSEADTLRKVLVEVLADGTKHHHHHH |
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 C: SER32 TYR33 TYR35 SER54 PRO55 SER56 GLY58 TYR59 TYR61 TYR102 TYR103 GLY104 TYR105 TYR106 TYR107 SER108 HIS109 SER168 SER169 TYR170 TYR187 ALA188 SER191 LEU192 GLN193 SER194 H: THR6 VAL8 ALA13 ARG37 GLN38 LEU39 GLY40 GLU41 LYS42 GLY43 PRO44 GLN46 PRO87 HIS88 ALA90 GLY91 LEU92 LEU110 GLU112 VAL113 LEU114 ALA115 |
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)
