Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 190 |
| PDBID: | 1YJD |
| Chains: | HL_C |
| Organism: | Mus musculus, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.70 |
| Reference: | 10.1038/ni1170 |
| Antibody | |
| Antibody: | 5.11A1 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | T cell specific surface glycoprotein CD28 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >1YJD_H|Chain B[auth H]|Fab fragment of 5.11A1 antibody heavy chain|Mus musculus (10090) QVQLQQSGPELVKPGTSVRISCEASGYTFTSYYIHWVKQRPGQGLEWIGCIYPGNVNTNYNEKFKDKATLIVDTSSNTAYMQLSRMTSEDSAVYFCTRSHYGLDWNFDVWGAGTTVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPRDC |
Light Chain: L
Mutation: NULL
| >1YJD_L|Chain A[auth L]|Fab fragment of 5.11A1 antibody light chain|Mus musculus (10090) DIQMNQSPSSLSASLGDTITITCHASQNIYVWLNWYQQKPGNIPKLLIYKASNLHTGVPSRFSGSGSGTGFTLTISSLQPEDIATYYCQQGQTYPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRN |
Antigen
Chain: C
Mutation: NULL
| >1YJD_C|Chain C|T-cell-specific surface glycoprotein CD28|Homo sapiens (9606) TGNKILVKQSPMLVAYDNAVNLSCKYSYNLFSREFRASLHKGLDSAVEVCVVYGNYSQQLQVYSKTGFNCDGKLGNESVTFYLQNLYVNQTDIYFCKIEVMYPPPYLDNEKSNGTIIHVKGKHLCPSPLFPGPSKPLVPR |
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)
| L: TYR30 TRP32 LYS50 GLY91 GLN92 TYR96 H: THR28 THR30 SER31 TYR33 TYR52 GLY54 ASN55 HIS100 TYR101 GLY102 LEU103 ASP104 TRP105 C: GLU32 ARG34 TYR51 GLN59 TYR61 SER62 LYS63 THR64 GLY65 GLU97 MET99 TYR100 PRO102 TYR104 |
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)
