Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6903 |
| PDBID: | 4K9E |
| Chains: | HL_C |
| Organism: | Mus musculus, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.70 |
| Reference: | 10.1073/pnas.1317118110 |
| Antibody | |
| Antibody: | 79D Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Mast/stem cell growth factor receptor Kit D4D5 |
| Antigen mutation: | No |
| Durg Target: | P10721 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >4K9E_H|Chain B[auth H]|heavy chain|Mus musculus (10090) SEVQLVESGGGLVQPGGSLRLSCAASGFNISVYMMHWVRQAPGKGLEWVASIYPYSGYTYYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYCARYVYHALDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC |
Light Chain: L
Mutation: NULL
| >4K9E_L|Chain A[auth L]|light chain|Mus musculus (10090) DIQMTQSPSSLSASVGDRVTITCRASQRGLRNVAVAWYQQKPGKAPKLLIYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQWAVHSLITFGQGTKVEIKRTVAAPSVFIFPPSDSQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGECGGSDYKDDDDK |
Antigen
Chain: C
Mutation: NULL
| >4K9E_C|Chain C|Mast/stem cell growth factor receptor Kit|Homo sapiens (9606) GAMVDKGFINIFPMINTTVFVNDGENVDLIVEYEAFPKPEHQQWIYMNRTFTDKWEDYPKSENESNIRYVSELHLTRLKGTEGGTYTFLVSNSDVNAAIAFNVYVNTKPEILTYDRLVNGMLQCVAAGFPEPTIDWYFCPGTEQRCSASVLPVDVQTLNSSGPPFGKLVVQSSIDSSAFKHNGTVECKAYNDVGKTSAYFNFAFKGNNKEQIHP |
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 L: GLY29 ARG31 ASN32 TYR51 LEU56 TYR57 SER58 TRP93 VAL95 H: SER0 VAL2 GLY26 PHE27 ASN28 SER30 VAL31 TYR32 MET33 TYR52 TYR54 SER55 TYR57 TYR59 ARG98 TYR99 VAL100 TYR101 HIS102 TYR106 C: PHE316 PRO317 MET318 ILE319 ASN320 THR321 THR322 VAL323 PHE324 VAL325 ASN326 GLY328 GLU329 ASN330 VAL331 ASP332 ILE334 GLU336 LYS358 GLU360 TYR362 PRO363 LYS364 SER365 GLU366 ARG372 GLU376 HIS378 THR380 ARG381 ASP496 VAL497 GLY498 |
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)
