Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2554 |
| PDBID: | 6NMR |
| Chains: | JK_M |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.42 |
| Reference: | 10.1080/19420862.2019.1624123 |
| Antibody | |
| Antibody: | 119 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Tyrosine-protein phosphatase non-receptor type substrate 1 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: J
Mutation: NULL
| >6NMR_J|Chain B[auth A], E[auth F], H, K[auth J]|Fab 119 anti-SIRP-alpha antibody Variable Heavy Chain|Homo sapiens (9606) DVQLLESGGGVVQPGGSLRLSCAASGFSFSNFAMTWVRQAPGEGLEWVSTIGSGDTYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCAKDSTVSWSGDFFDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCHHHHHH |
Light Chain: K
Mutation: NULL
| >6NMR_K|Chain A[auth B], D[auth G], G[auth K], J[auth L]|Fab 119 anti-SIRP-alpha antibody Variable Light Chain|Homo sapiens (9606) EIVLTQSPATLSVSPGERATFSCRASQNVKNDLAWYQQRPGQAPRLLIYAARIRETGIPERFSGSGSGTEFTLTITSLQSEDFAVYYCQQYYDWPPFTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: M
Mutation: NULL
| >6NMR_M|Chain C[auth E], F[auth I], I[auth M], L[auth S]|Tyrosine-protein phosphatase non-receptor type substrate 1|Homo sapiens (9606) EEELQVIQPDKSVLVAAGETATLRCTATSLIPVGPIQWFRGAGPGRELIYNQKEGHFPRVTTVSDLTKRNNMDFSIRIGAITPADAGTYYCVKFRKGSPDDVEFKSGAGTELSVRAKPSTRHHHHHH |
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)
| K: LYS30 TYR49 ILE53 GLU55 TYR92 TRP94 PRO95 J: SER30 ASN31 PHE32 ALA33 GLY52 SER53 GLY54 ASP55 TYR57 ARG70 ASN72 LYS96 SER98 THR99 VAL100 SER101 TRP102 ASP105 PHE106 ASP108 M: THR28 SER29 LEU30 ILE31 PRO32 VAL33 ILE36 TRP38 TYR50 GLN52 LYS53 GLU54 THR62 SER64 ASP65 LEU66 THR67 LYS68 ARG69 ASN70 ASN71 PHE74 ILE76 ARG95 LYS96 SER98 |
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)
