Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1648 |
| PDBID: | 5SX4 |
| Chains: | JI_M |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.80 |
| Reference: | 10.1371/journal.pone.0163366 |
| Antibody | |
| Antibody: | Panitumumab Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | Bafisontamab(Phase-I/II); Panitumumab(Approved); |
| Antigen | |
| Antigen: | Epidermal growth factor receptor |
| Antigen mutation: | No |
| Durg Target: | Q504U8; P00533; |
Sequence information
Antibody
Heavy Chain: J
Mutation: NULL
| >5SX4_J|Chain B[auth H], D[auth J]|Panitumumab Fab Heavy Chain|Homo sapiens (9606) QVQLQESGPGLVKPSETLSLTCTVSGGSVSSGDYYWTWIRQSPGKGLEWIGHIYYSGNTNYNPSLKSRLTISIDTSKTQFSLKLSSVTAADTAIYYCVRDRVTGAFDIWGQGTMVTVSSASTKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVERKC |
Light Chain: I
Mutation: NULL
| >5SX4_I|Chain A[auth I], C[auth L]|Panitumumab Fab Light Chain|Homo sapiens (9606) DIQMTQSPSSLSASVGDRVTITCQASQDISNYLNWYQQKPGKAPKLLIYDASNLETGVPSRFSGSGSGTDFTFTISSLQPEDIATYFCQHFDHLPLAFGGGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: M
Mutation: NULL
| >5SX4_M|Chain E[auth M], F[auth N]|Epidermal growth factor receptor|Homo sapiens (9606) LEEKKVCNGIGIGEFKDSLSIDATNIKHFKNCTSISGDLHILPVAFRGDSFTHTPPLDPQELDILKTVKEITGFLLIQAWPENRTDLHAFENLEIIRGRTKQHGQFSLAVVSLDITSLGLRSLKEISDGDVIISGNKNLCYANTINWKKLFGTSGQKTKIISNRGENSCKATGQVCHALCSPEGCWGPEPRDCVSHHHHHH |
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)
| I: GLN27 ASN31 TYR32 ASP50 PHE91 ASP92 HIS93 LEU94 LEU96 J: GLY32 ASP33 TYR35 HIS52 TYR54 TYR55 SER56 GLY57 ASN58 THR59 ASN60 ASP100 VAL102 THR103 GLY104 M: LEU348 PRO349 ARG353 GLN384 ALA385 GLN408 HIS409 GLN411 PHE412 VAL417 SER418 LEU419 ASP420 ILE438 SER440 GLY441 LYS443 THR464 LYS465 ILE466 ILE467 SER468 ASN469 ARG470 GLY471 GLU472 ASN473 |
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)
