Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4279 |
| PDBID: | 7M8J |
| Chains: | HL_A |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Homo sapiens |
| Method: | EM |
| Resolution (Å): | 3.48 |
| Reference: | 10.1126/science.abg5268 |
| Antibody | |
| Antibody: | CM25 Fv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 Spike glycoprotein NTD |
| Antigen mutation: | No |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7M8J_H|Chain B[auth H]|CM25 Fab - Heavy Chain|Homo sapiens (9606) VQLVQSGAEVKKPGASVKVSCKVSGYTLTELSMHWVRQAPGKGLEWMGGFDPEDGETIYAQKFQGRVTMTEDTSTDTAYMELSSLRSEDTAVYYCATGPAVRRGSWFDPWGQGTLVTVSS |
Light Chain: L
Mutation: NULL
| >7M8J_L|Chain C[auth L]|CM25 Fab - Light Chain|Homo sapiens (9606) VVTQPPSVSAAPGQKVTISCSGSSSNIGNNYVSWYQQLPGTAPKLLIYDNNKRPSGIPDRFSGSKSGTSATLGITGLQTGDEADYYCGTWDSSLSAHWVFGGGTKLTVL |
Antigen
Chain: A
Mutation: NULL
| >7M8J_A|Chain A|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) QCVNLTTRTQLPPAYTNSFTRGVYYPDKVFRSSVLHSTQDLFLPFFSNVTWFHAIHVSGTNGTKRFDNPVLPFNDGVYFASTEKSNIIRGWIFGTTLDSKTQSLLIVNNATNVVIKVCEFQFCNDPFLGVYYHKNNKSWMESEFRVYSSANNCTFEYVSQPFLMDLEGKQGNFKNLREFVFKNIDGYFKIYSKHTPINLVRDLPQGFSALEPLVDLPIGINITRFQTLLALHRSYLTPGDSSSGWTAGAAAYYVGYL |
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 GLY27 TYR28 THR29 LEU30 THR35 GLU36 LEU37 SER38 PHE56 PRO58 GLY63 THR106 GLY107 PRO108 ALA109 VAL110 ARG111 TRP114 ASP116 PRO117 L: LEU52 TYR55 PRO68 SER69 A: TYR144 TYR145 HIS146 LYS147 ASN148 LYS150 TRP152 ARG246 SER247 TYR248 LEU249 THR250 PRO251 GLY252 ASP253 SER255 |
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)
