Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1222 |
| PDBID: | 5CBA |
| Chains: | AB_E |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.50 |
| Reference: | 10.1074/jbc.M115.688010 |
| Antibody | |
| Antibody: | 3B4 Fv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | C-X-C motif chemokine 13 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: A
Mutation: NULL
| >5CBA_A|Chain A, C|3b4 heavy chain|Homo sapiens (9606) QVQLVQSGAEVKKPGSSVKVSCKASGGTFSSYAISWVRQAPGQGLEWMGGIIPIFGTANYAQKFQGRVTITADESTSTAYMELSSLRSEDTAVYYCAREPDYYDSSGYYPIDAFDIWGQGTTVTVSSGGGGSGGGGSGGGGS |
Light Chain: B
Mutation: NULL
| >5CBA_B|Chain B, D|3b4 light chain|Homo sapiens (9606) QSALTQPASVSASPGQSITISCTGTSSDVGAYDWVSWYQQHPGKAPKLLIFDVNNRPSGVSHRFSGSKSGNTASLTISGLQAEDEADYYCSSYTRRDTYVFGTGTKVTVLGENLYFQ |
Antigen
Chain: E
Mutation: NULL
| >5CBA_E|Chain E, F|C-X-C motif chemokine 13|Homo sapiens (9606) MVLEVYYTSLRCRCVQESSVFIPRRFIDRIQILPRGNGCPRKEIIVWKKNKSIVCVDPQAEWIQRMMEVLRKRSSSTLPVPVFKRKIP |
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)
| A: THR28 SER30 SER31 ALA33 ILE53 PHE54 THR56 ASN58 GLU73 GLU95 PRO96 ASP97 TYR99 B: TYR30 TRP32 TYR91 ARG93 E: PHE18 PRO20 ARG21 ARG22 ILE24 ASP25 ARG26 ILE27 GLN28 ILE29 LYS46 LYS48 TRP59 ARG62 MET63 VAL66 LEU67 ARG68 |
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)
