Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2988 |
| PDBID: | 6VBG |
| Chains: | C_A |
| Organism: | Escherichia coli, Lama glama |
| Method: | XRD |
| Resolution (Å): | 2.80 |
| Reference: | 10.1371/journal.pone.0232846 |
| Antibody | |
| Antibody: | 9043 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Galactoside permease |
| Antigen mutation: | No |
| Durg Target: | P02920 |
Sequence information
Antibody
Chain: C
Mutation: NULL
| >6VBG_C|Chain B[auth C], D|nanobody 9043|Lama glama (9844) QVQLVESGGGLVQAGDSLRLSCAASGRPFSNYAMGWFRQAPGKERERVASINWSGTDTDYADSVKGRFTISRDNAKRTLYLQMNTLKPEDTAVYYCAARVGVDYKYWGQGTQVTVSSHHHH |
Antigen
Chain: A
Mutation: NULL
| >6VBG_A|Chain A, C[auth B]|Galactoside permease|Escherichia coli (562) MYYLKNTNFWMFGLFFFFYFFIMGAYFPFFPIWLHDINHISKSDTWIIFAAISLFSLLFQPLFGLLSDKLGLRKYLLWIITGMLVMFAPFFIFIFGPLLQYNILVGSIVGGIYLGFCFNAGAPAVEAFIEKVSRRSNFEFGRARMFGCVGWALCASIVGIMFTINNQFVFWLGSGCALILAVLLFFAKTDAPSSATVANAVGANHSAFSLKLALELFRQPKLWFLSLYVIGVSCTYDVFDQQFANFFTSFFATGEQGTRVFWYVTTMGELLNASIMFFAPLIINRIGGKNALLLAGTIMSVRIIGSSFATSALEVVILKTLHMFEVPFLLVGCFKYITSQFEVRFSATIYLVCFCFFKQLAMIFMSVLAGNMYESIGFQGAYLVLGLVALGFTLISVFTLSGPGPLSLLRRQVNEVA |
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 C: GLN1 ARG27 PRO28 SER30 ASN31 ALA33 ARG47 SER50 ILE51 ASN52 TRP53 SER54 THR56 ASP57 ASP59 ARG99 VAL100 GLY101 VAL102 ASP103 TYR104 LYS105 A: HIS35 ASP36 LYS42 ASN245 THR248 SER249 PHE250 PHE251 ALA252 THR253 GLY254 GLU255 GLN256 THR258 ALA309 THR310 SER311 ALA312 TYR373 GLU374 SER375 ILE376 GLY377 PHE378 GLN379 |
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)
