Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4014 |
| PDBID: | 7KYO |
| Chains: | HL_B |
| Organism: | Streptococcus pneumoniae D39, Mus musculus |
| Method: | XRD |
| Resolution (Å): | 2.85 |
| Reference: | 10.1126/sciadv.abg3980 |
| Antibody | |
| Antibody: | 7KYO Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Manganese ABC transporter, permease protein |
| Antigen mutation: | Yes |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7KYO_H|Chain B[auth H]|Fab heavy chain|Mus musculus (10090) EVMLVESGGGLVKPGGSLKLSCAASGITFSSYAMSWVRQTPEKRLEWVASISSGGSTYYPDSVKGRFTISRDNARNILYLQMSSLRSEDTAMYYCARGPMALLYYRGFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEPRGPTIKPCPPCKCP |
Light Chain: L
Mutation: NULL
| >7KYO_L|Chain C[auth L]|Fab light chain|Mus musculus (10090) DIVMTQSPASLAVSLGQRATISCKASQSVDYDGDSYMNWYQQKPGQPPQLLIYAASNLESGIPARFSGSGSGTDFTLNIHPVEEEDAATYYCQQSNEDPWTFGGGTNLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTNQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: B
Mutation: F100S
| >7KYO_B|Chain A[auth B]|Manganese ABC transporter, ATP-binding protein|Streptococcus pneumoniae serotype 2 (strain D39 / NCTC 7466) (373153) MIRIENLSVSYKETLALKDISLVLHGPTITGIIGPNGAGKSTLLKGMLGIIPHQGQAFLDDKEVKKSLHRIAYVEQKINIDYNFPIKVKECVSLGLFPSIPLFRSLKAKHWKKVQEALEIVGLADYAERQISQLSGGQFQRVLIARCLVQEADYILLDEPFAGIDSVSEEIIMNTLRDLKKAGKTVLIVHHDLSKIPHYFDQVLLVNREVIAFGPTKETFTETNLKEAYGNQLFFNGGDL |
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: VAL2 GLY26 THR28 SER31 TYR32 SER52 SER53 GLY54 ARG97 MET100 ALA101 LEU102 LEU103 TYR104 TYR105 ARG106 ASP109 TYR110 L: TYR31 ASP32 ASP34 TYR36 TYR53 ASN57 LEU58 GLU59 SER60 GLY61 B: PRO27 LYS107 LYS109 LYS112 LYS113 GLU116 ALA117 GLU119 ILE120 GLY122 CYS147 LEU148 VAL149 GLU151 ALA152 ASP153 ILE155 ASN174 THR175 ARG177 ASP178 LEU179 LYS180 LYS181 ALA182 GLY183 LYS184 |
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)
