Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2995 |
| PDBID: | 6VEL |
| Chains: | HL_C |
| Organism: | Mus musculus, Saccharomyces cerevisiae S288C, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.65 |
| Reference: | 10.1093/pnasnexus/pgac163 |
| Antibody | |
| Antibody: | 66E8 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Ubiquitin-like protein SMT3 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >6VEL_H|Chain A[auth H]|66E8 Fab Heavy Chain|Mus musculus (10090) MGWSCIILFLVATATGVHSEVQLQQSGPELVKPGASVKISCKASGYSFTGYFMNWVKQSHGKSLEWIGRINPYNGDTFYKQRFKGKATLTVDKSSSTVHMDLLSLTSEDSAVYYCGRGNYYFDYWGQGTTLTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSPRPSETVTCNVAHPASSTKVDKKIVPRDCHHHHHH |
Light Chain: L
Mutation: NULL
| >6VEL_L|Chain B[auth L]|66E8 Fab Light Chain|Mus musculus (10090) MGWSCIILFLVATATGVHSDVQITQSPSYLAASPGETITINCRTSKNISKYLAWYQEKPGKTNKLLIYSGYTLQSGIPSRFSGSGSGTDFTLTISSLEPEDFAMYYCQQHNEYPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: C
Mutation: NULL
| >6VEL_C|Chain C|Ubiquitin-like protein SMT3,Cadherin-1|Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (559292) MASMHHHHHHGSSMASMSDSEVNQEAKPEVKPEVKPETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGGDWVIPPISCPENEKGPFPKNLVQIKSNKDKEGKVFYSITGQGADTPPVGVFIIERETGWLKVTEPLDRERIATYTLFSHAVSSNGNAVEDPMEILITVTDQNDNKPEFTQEVFKGSVMEGALPGTSVMEVTATDADDDVNTYNAAIAYTILSQDPELPDKNMFTINRNTGVISVVTTGLDRESFPTYTLVVQAADLQGEGLSTTATAVITVTDTNDN |
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 H: SER47 THR49 GLY50 PHE52 ARG69 ASN71 TYR73 ASN74 LYS93 ASN119 TYR120 L: LYS46 ASN47 SER49 LYS50 TYR51 HIS110 ASN111 GLU112 C: ASN113 ASN203 ASP204 ASN205 LYS206 GLU208 ILE251 LEU252 SER253 GLN254 ASP255 GLU257 LYS261 ASN262 VAL291 GLN293 LEU302 SER303 THR304 THR305 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 6 Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 6 Å from any atom.
Interacting residues (Atom distance based)
