Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 882 |
| PDBID: | 4OT1 |
| Chains: | HL_A |
| Organism: | Human herpesvirus 5 strain Towne, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.11 |
| Reference: | 10.1371/journal.ppat.1004377 |
| Antibody | |
| Antibody: | SM5-1 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Envelope glycoprotein B |
| Antigen mutation: | Yes |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >4OT1_H|Chain B[auth H]|SM5-1 Fab Heavy Chain|Homo sapiens (9606) QVQLVQSGAEVRKPGASVKVSCKASGYSLKDHYMVWVRQAPGQGLEWMGWINPQSGGTGYGQKFQGRVTMTRDTSTNTAYMILSSLRSDDTAVYFCARDGAKTVSNSGLSLLYYHNRLDAWGQGTMVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC |
Light Chain: L
Mutation: NULL
| >4OT1_L|Chain C[auth L]|SM5-1 Fab Light Chain|Homo sapiens (9606) QSVLTQPPSVSAAPGQMVTISCSGSSSNIGKNYVSWYQQLPGAAPKLLIFDNNKRPSGTPDRFSGSKSGTSATLVITGLQTGDEADYYCGTPDRSLSVVFGGGTKVTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: A
Mutation: I88A/N89A
| >4OT1_A|Chain A|Envelope glycoprotein B|Human Cytomegalovirus (10363) GPLGSPEFTSMKPINEDLDEGIMVVYKRNIAGSGCQLTFWEASERTIRSEAEDSYHFSSAKMTATFLSKKQEVNMSDSALDCVRDEAAAKLQQIFNTSYNQTYEKYGNVSVFETTGGLVVFWQGIKQKS |
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)
| H: SER55 ALA101 LYS102 SER105 SER107 GLY108 LEU109 SER110 LEU111 LEU112 TYR113 TYR114 L: LYS31 ASN32 TYR33 ASN52 LYS67 ARG94 A: ARG131 ILE133 GLU359 ALA360 GLU361 ASP362 TYR364 LYS379 GLN380 GLU381 VAL382 ASN383 MET384 ASP386 ALA388 LEU389 TYR415 GLU422 VAL428 |
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)
