Crystal Structure of the Fab Fragment of anti-Ciguatoxin antibody 10C9 in complex with Ctx3C_abcde
PDB | 2z92 |
Species | MUS MUSCULUS |
Method | X-RAY DIFFRACTION |
Resolution | 2.3Å |
Number of Fvs | 1 |
In complex | True |
Light chain type | Kappa |
Has constant region | True |
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Display options: |
This PDB has 1 Fv(s).
Fv Details | |
---|---|
Heavy chain | A |
Light chain | B |
Heavy subgroup | IGHV3 |
Light subgroup | IGKV4 |
Species | MUS MUSCULUS |
In complex? | True |
scFv? | False |
Has constant domain? | True |
Numbered Sequences (chothia) |
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Heavy chain
3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 | 21 | 22 | 23 | 24 | 25 | 26 | 27 | 28 | 29 | 30 | 31 | 31A | 32 | 33 | 34 | 35 | 36 | 37 | 38 | 39 | 40 | 41 | 42 | 43 | 44 | 45 | 46 | 47 | 48 | 49 | 50 | 51 | 52 | 52A | 53 | 55 | 56 | 57 | 58 | 59 | 60 | 61 | 62 | 63 | 64 | 65 | 66 | 67 | 68 | 69 | 70 | 71 | 72 | 73 | 74 | 75 | 76 | 77 | 78 | 79 | 80 | 81 | 82 | 82A | 82B | 82C | 83 | 84 | 85 | 86 | 87 | 88 | 89 | 90 | 91 | 92 | 93 | 94 | 95 | 96 | 97 | 98 | 99 | 101 | 102 | 103 | 104 | 105 | 106 | 107 | 108 | 109 | 110 | 111 | 112 | 113 |
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Q | L | L | E | S | G | P | D | L | V | K | P | S | Q | S | L | S | L | T | C | T | V | T | G | Y | S | I | T | S | G | Y | N | W | H | W | I | R | Q | F | P | G | N | K | L | E | W | M | G | Y | I | H | Y | R | G | T | T | N | Y | N | T | S | L | K | S | R | I | S | I | T | R | D | S | S | K | N | Q | F | F | L | Q | L | N | S | V | T | T | E | D | T | A | T | Y | Y | C | A | C | D | D | F | Y | S | D | Y | W | G | Q | G | T | I | V | T | V | S | S |
Light chain
2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 | 21 | 22 | 23 | 24 | 25 | 26 | 27 | 28 | 29 | 31 | 32 | 33 | 34 | 35 | 36 | 37 | 38 | 39 | 40 | 41 | 42 | 43 | 44 | 45 | 46 | 47 | 48 | 49 | 50 | 51 | 52 | 53 | 54 | 55 | 56 | 57 | 58 | 59 | 60 | 61 | 62 | 63 | 64 | 65 | 66 | 67 | 68 | 69 | 70 | 71 | 72 | 73 | 74 | 75 | 76 | 77 | 78 | 79 | 80 | 81 | 82 | 83 | 84 | 85 | 86 | 87 | 88 | 89 | 90 | 91 | 92 | 93 | 94 | 95 | 96 | 97 | 98 | 99 | 100 | 101 | 102 | 103 | 104 | 105 | 106 | 107 |
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L | V | M | T | Q | T | P | A | I | M | S | A | S | P | G | E | K | V | T | M | T | C | S | A | S | S | S | V | S | S | V | H | W | Y | Q | Q | K | S | G | T | S | P | K | R | W | I | Y | D | T | S | K | L | P | S | G | V | P | G | R | F | S | G | S | G | S | G | T | S | Y | S | L | T | I | S | S | M | E | A | E | D | A | A | T | Y | Y | C | Q | Q | W | S | S | N | P | P | T | F | G | A | G | T | K | L | E | V | K |
Antigen Details | |
---|---|
Antigen chains | A |
Antigen type | Hapten |
Antigen name | (4Z)-2,8:7,12:11,15:14,18:17,22-PENTAANHYDRO-4,5,6,9,10,13,19,20,21-NONADEOXY-D-ARABINO-D-ALLO-D-ALLO-DOCOSA-4,9,20-TRIENITOL |
Antigen species | MUS MUSCULUS |
Antigen sequence |
CDR Sequences (chothia definition) | |
---|---|
CDRH1 | GYSITSGY |
CDRH2 | HYRGT |
CDRH3 | DDFYSDY |
CDRL1 | SASSSVSSVH |
CDRL2 | DTSKLPS |
CDRL3 | QQWSSNPPT |
Orientation Angles (from ABangle) | |
---|---|
HL | -66.99° |
HC1 | 75.78° |
HC2 | 124.55° |
LC1 | 116.78° |
LC2 | 85.13° |
dc | 16.11Å |
Schneider, C., Raybould, M.I.J., Deane, C.M. (2022) SAbDab in the Age of Biotherapeutics: Updates including SAbDab-Nano, the Nanobody Structure Tracker. Nucleic Acids Res. 50(D1):D1368-D1372 [link]
SAbDab paper: Dunbar, J., Krawczyk, K. et al (2014). Nucleic Acids Res. 42. D1140-D1146 [link]
Thera-SAbDab paper: Raybould, M.I.J., Marks, C. et al (2019). Nucleic Acids Res. gkz827 [link]