Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3779 |
| PDBID: | 7JGJ |
| Chains: | HL_A |
| Organism: | Streptococcus pneumoniae, Mus musculus |
| Method: | EM |
| Resolution (Å): | 4.80 |
| Reference: | 10.1038/s41467-020-19887-3 |
| Antibody | |
| Antibody: | 7JGJ Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Immunoglobulin A1 protease |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7JGJ_H|Chain C[auth H]|mAB Heavy Chain|Mus musculus (10090) EVQLQQSGPELEKPGASMKISCKASGYSFTGYNMNWVKQSNGKSLEWIGSIDPYTGGSNYNQKFMGKATLTVDKSSSTAYMQLKSLTSEDSAVYYCATVVGRVYAMDYWGQGTSVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVP |
Light Chain: L
Mutation: NULL
| >7JGJ_L|Chain B[auth L]|mAB Light Chain|Mus musculus (10090) EEVLTQSPAIMSASPGEKVTMTCSASSSVSYIHWYQQKSNTSPKLWIYATSKLASGVPGRFSGSGSGNSYSLTISSMEAEDVATYYCFQGSGYPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: A
Mutation: NULL
| >7JGJ_A|Chain A|Immunoglobulin A1 protease|Streptococcus pneumoniae (1313) TEPEKKLELRNVSDIELYSQTNGTYRQHVSLDGIPENTDTYFVKVKSSAFKDVYIPVASITEEKRNGQSVYKITAKAEKLQQELENKYVDNFTFYLDKKAKEENTNFTSFSNLVKAINQNPSGTYHLAASLNANEVELGPDERSYIKDTFTGRLIGEKDGKNYAIYNLKKPLFENLSGATVEKLSLKNVAISGKNDIGSLANEATNGTKIKQVHVDGVLAGERGVGGLLAKADQSSIAESSFKGRIVNTYETTDAYNIGGLVGHLTGKNASIAKSKATVTISSNTNRSDQTVGGLAGLVDQDAHIQNSYAEGDINNVKHFGKVAGVAGYLWDRTSGEEKHAGELTNVLSDVNVTNGNAITGYHYTGMKVANTFSSKANRVFNVTLEKDEVVSKESFEERGTMLDASQIVSKKAEINPLTLPTVEPLSTSGKKDSDFSKIAHYQANRALVYKNIEKLLPFYNKSTIVKYGNLVKENSLLYQKELLSAVMMKDDQVITDIVSNKQTANKLLLHYNDHSSEKFDLKYQTDFANLAEYNLGNTGLLYTPNQFLYDRDSIVKEVLPELQKLDYQSDAIRKTLGISPEVKLTELYLEDQFSKTKQNLGDSLKKLLSADAGLASDNSVTRGYLVDKIKNNKEALLLGLTYLERWYNFNYGQVNVKDLVMYHPDFFGKGNTSPLDTLIELGKSGFNNLLAKNNVDTYGISLASQHGATDLFSTLEHYRKVFLPNTSNNDWFKSETKAYIVEEKSTIEEVKTKQGLAGTKYSIGVYDRITSATWKYRNMVLPLLTLPERSVFVISTMSSLGFGAYDRYRSSDHKAGKALNDFVEENARETAKRQRDHYDYWYRILDEQSREKLYRTILLYDAYKFGDDTTSGKATAEAKFDSSNPAMKNFFGPVGNKVVHNQHGAYATGDGVYYMSYRMLDKDGAITYTHEMTHDSDQDIYLGGYGRRNGLGPEFFAKGLLQAPDQPSDATITINSILKHSKSDSTEGSRLQVLDPTERFQNAADLQNYVHNMFDLIYMMEYLEGQSIVNKLSVYQKMAALRKIENKYVKDPADGNEVYATNVVKELTEAEARNLNSFESLIDHNILSAREYQSGDYERNGYYTIKLFAPIYSALSSEKGTPGDLMGRRIAYELLAAKGFKDGMVPYISNQYEEDAKQQGQTINLYGKERGLVTDELVLKKVFDGKYKTWAEFKTAMYQERVDQFGNLKQVTFKDPTKPWPSYGTKTINNVDELQALMDQAVLKDAEGPRWSNYDPEIDSAVHKLKRAIFKAYLDQTNDFRSSIFENKK |
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 L: SER28 VAL29 SER30 TYR31 GLY90 SER91 TYR93 PHE95 H: SER28 THR30 GLY31 TYR32 ASN33 ASP52 TYR54 THR55 GLY56 GLY57 SER58 ASN59 VAL99 GLY101 ARG102 A: ARG896 GLU924 THR925 THR926 ASP927 ALA928 ASN959 ARG960 SER961 ASP962 HIS992 PHE993 LYS995 TYR1002 TRP1004 ARG1006 ASN1030 GLY1034 TYR1035 HIS1036 PHE1054 PRO1254 GLU1255 |
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)
