Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2406 |
| PDBID: | 6KNM |
| Chains: | A_B |
| Organism: | Homo sapiens, Clostridium pasteurianum, Camelus bactrianus |
| Method: | XRD |
| Resolution (Å): | 3.20 |
| Reference: | 10.1126/sciadv.aax7379 |
| Antibody | |
| Antibody: | JN241 VH-sdAb |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Apelin receptor |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: A
Mutation: NULL
| >6KNM_A|Chain B[auth A]|Single domain antibody JN241|Camelus bactrianus (9837) QVQLVESGGGSVQSGGSLTLSCAASGSTYSSHCMGWFRQAPGKEREGVALMTRSRGTSYADSVKGRFTISQDNTKNILYLQMNSLKPEDTAMYYCAAVPRAGIESGAYCKWNMKDSGSWGQGTQVTVSS |
Antigen
Chain: B
Mutation: NULL
| >6KNM_B|Chain A[auth B]|Apelin receptor,Rubredoxin,Apelin receptor|Homo sapiens (9606) MKTIIALSYIFCLVFADYKDDDDKFDNYYGADNQSECEYTDWKSSGALIPAIYMLVFLLGTTGNGLVLWTVFRSSREKRRSADIFIASLAVADLTFVVTLPLWATYTYRDYDWPFGTFFCKLSSYLIFVNMYASAFCLTGLSFDRYLAIVRPVANARLRLRVSGAVATAVLWVLAALLAMPVMVLRTTGDLENTNKVQCYMDYSMVATVSSEWAWEVGLGVSSTTVGFVVPFTIMLTCYFFIAQTIAMKKYTCTVCGYIYNPEDGDPDNGVNPGTDFKDIPDDWVCPLCGVGKDQFEEVEERRRLLSIIVVLVVTFALCKMPYHLVKTLYMLGSLLHWPCDFDLFLMNIFPYCTCISYVNSCLNPFLYAFFDPRFRQACTSMLLMGQSRLEVLFQGPHHHHHHHHHH |
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 A: GLN1 VAL2 THR28 TYR29 SER30 SER31 HIS32 CYS33 MET51 THR52 ARG53 SER54 ARG55 GLY56 THR57 ILE69 SER70 GLN71 ASP72 ASN73 THR74 PRO99 ARG100 ALA101 GLY102 ILE103 GLU104 SER105 GLY106 ALA107 TYR108 CYS109 LYS110 TRP111 ASN112 MET113 SER116 GLY117 SER118 B: GLU18 CYS19 GLU20 TYR21 THR22 ASP23 TYR88 ASP92 TYR93 ILE109 PHE110 ARG168 GLY171 ASP172 LEU173 GLU174 ASN175 THR176 LYS178 GLN180 CYS181 TYR182 MET183 ASP184 TYR185 SER186 VAL191 SER192 GLU194 TRP195 GLU198 TYR264 LYS268 TYR271 MET272 SER275 LEU276 TRP279 CYS281 ASP284 LEU285 LEU287 MET288 PHE291 THR295 TYR299 |
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)
