Crystal structure of Ky311 Fab in complex with circumsporozoite protein KQPA peptide. Determined by X-ray diffraction at 1.8 Å resolution. Released 1 Nov 2023.
Explore 8FDC in 3D Show helices and sheets RCSB PDB PDBe
8FDC contains 18 α-helices and 45 β-strands across 3 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 3-7 | 5 | 1 |
| β-strand | 11-12 | 2 | 2 |
| β-strand | 18-25 | 8 | 1 |
| α-helix | 29-31 | 3 | |
| β-strand | 34-39 | 6 | 3 |
| β-strand | 45-51 | 7 | 3 |
| β-strand | 57-59 | 3 | 3 |
| β-strand | 64 | 1 | 1 |
| β-strand | 67-72 | 6 | 1 |
| α-helix | 73-75 | 3 | |
| β-strand | 77-82 | 6 | 1 |
| α-helix | 84-86 | 3 | |
| β-strand | 88-98 | 11 | 3 |
| β-strand | 100A-103 | 8 | 3 |
| β-strand | 107-109 | 3 | 3 |
| β-strand | 110-111 | 2 | 2 |
| α-helix | 114-116 | 3 | |
| β-strand | 117 | 1 | 4 |
| α-helix | 118-119 | 2 | |
| β-strand | 120-124 | 5 | 5 |
| β-strand | 134-144 | 11 | 5 |
| β-strand | 145 | 1 | 4 |
| β-strand | 150-153 | 4 | 6 |
| α-helix | 154-156 | 3 | |
| β-strand | 158 | 1 | 6 |
| β-strand | 162-164 | 3 | 5 |
| α-helix | 165-167 | 3 | |
| β-strand | 168-169 | 2 | 5 |
| β-strand | 175-184 | 10 | 5 |
| α-helix | 185-187 | 3 | |
| β-strand | 194-199 | 6 | 6 |
| α-helix | 200-202 | 3 | |
| β-strand | 204-209 | 6 | 6 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 4-7 | 4 | 7 |
| β-strand | 10-13 | 4 | 8 |
| β-strand | 19-25 | 7 | 7 |
| β-strand | 33-38 | 6 | 8 |
| β-strand | 45-49 | 5 | 8 |
| β-strand | 53-54 | 2 | 8 |
| α-helix | 55 | 1 | |
| β-strand | 62-67 | 6 | 7 |
| β-strand | 70-75 | 6 | 7 |
| α-helix | 80-82 | 3 | |
| β-strand | 85-90 | 6 | 8 |
| β-strand | 97-98 | 2 | 8 |
| β-strand | 102-106 | 5 | 8 |
| β-strand | 111 | 1 | 9 |
| α-helix | 112-113 | 2 | |
| β-strand | 114-118 | 5 | 10 |
| α-helix | 119-121 | 3 | |
| α-helix | 122-125 | 4 | |
| β-strand | 129-139 | 11 | 10 |
| β-strand | 140 | 1 | 9 |
| β-strand | 145-150 | 6 | 11 |
| β-strand | 153-154 | 2 | 11 |
| α-helix | 155 | 1 | |
| β-strand | 159-163 | 5 | 10 |
| α-helix | 164-167 | 4 | |
| β-strand | 173-182 | 10 | 10 |
| α-helix | 183-186 | 4 | |
| β-strand | 191-197 | 7 | 11 |
| β-strand | 205-210 | 6 | 11 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 8-9 | 2 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| Circumsporozoite protein KQPA peptide | P | protein | 15 | Plasmodium falciparum (isolate NF54) | P19597 (AlphaFold model) |
| Ky311 Antibody, heavy chain | A | protein | 225 | Mus musculus | |
| Ky311 Antibody, light chain | B | protein | 213 | Mus musculus |
>8FDC_1 Circumsporozoite protein KQPA peptide (chains P) KQPADGNPDPNANPN
>8FDC_2 Ky311 Antibody, heavy chain (chains A) QMHLVESGGGVVQPGRSLRLSCVASGFTFNNHGMHWVRQAPGKGLEWVAVIWHDGSNKFY ADSVNGRFIVSRDNSKNTLYLHMNSLRAEDTAVYYCARDFFVSGSYNYFDPWGQGTLVTV SSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQ SSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC
>8FDC_3 Ky311 Antibody, light chain (chains B) EIVLTQSPVTLSLSPGERATLSCRASQSVSNYLAWYQQKPGQAPRLLIYDAANRATGTPA RFSGSGSGTDFTLTISSLEPEDFAVYFCQQRSKWFTFGPGTKLDIKRTVAAPSVFIFPPS DEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTL SKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC
Molecular determinants of cross-reactivity and potency by VH3-33 antibodies against the Plasmodium falciparum circumsporozoite protein. Thai, E., Murugan, R., Binter, S. et al. Cell Rep (2023) 42:113330-113330. DOI 10.1016/j.celrep.2023.113330 · PubMed
Other PDB entries of the same protein (UniProt P19597 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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