Crystal Structure of 10E8 Fab Light Chain Mutant3, against the Mper Region of the Hiv-1 Env, in complex with the Mper Epitope Scaffold T117V2
| PDB | 5t29 |
| Species | HOMO SAPIENS |
| Method | X-RAY DIFFRACTION |
| Resolution | 2.03Å |
| Number of Fvs | 1 |
| In complex | True |
| Light chain type | Lambda |
| Has constant region | True |
|
|
Display options: |
This PDB has 1 Fv(s).
| Fv Details | |
|---|---|
| Heavy chain | H |
| Light chain | L |
| Heavy subgroup | IGHV3 |
| Light subgroup | IGLV3 |
| Species | HOMO SAPIENS |
| In complex? | True |
| scFv? | False |
| Has constant domain? | True |
| Numbered Sequences (chothia) |
|---|
Heavy chain
| 1 | 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 | 30 | 31 | 32 | 33 | 34 | 35 | 36 | 37 | 38 | 39 | 40 | 41 | 42 | 43 | 44 | 45 | 46 | 47 | 48 | 49 | 50 | 51 | 52 | 52A | 52B | 52C | 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 | 82A | 82B | 82C | 83 | 84 | 85 | 86 | 87 | 88 | 89 | 90 | 91 | 92 | 93 | 94 | 95 | 96 | 97 | 98 | 99 | 100 | 100A | 100B | 100C | 100D | 100E | 100F | 100G | 100H | 100I | 100J | 100K | 100L | 101 | 102 | 103 | 104 | 105 | 106 | 107 | 108 | 109 | 110 | 111 | 112 | 113 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| E | V | Q | L | V | E | S | G | G | G | L | V | K | P | G | G | S | L | R | L | S | C | S | A | S | G | F | D | F | D | N | A | W | M | T | W | V | R | Q | P | P | G | K | G | L | E | W | V | G | R | I | T | G | P | G | E | G | W | S | V | D | Y | A | A | P | V | E | G | R | F | T | I | S | R | L | N | S | I | N | F | L | Y | L | E | M | N | N | L | R | M | E | D | S | G | L | Y | F | C | A | R | T | G | K | Y | Y | D | F | W | S | G | Y | P | P | G | E | E | Y | F | Q | D | W | G | R | G | T | L | V | T | V | S | S |
Light chain
| 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 | 21 | 22 | 23 | 24 | 25 | 26 | 27 | 28 | 29 | 30 | 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 | 95A | 95B | 95C | 96 | 97 | 98 | 99 | 100 | 101 | 102 | 103 | 104 | 105 | 106 | 107 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Y | E | L | T | Q | E | T | G | V | S | V | A | L | G | D | T | V | T | I | T | C | E | G | D | S | L | E | S | H | Y | A | S | W | Y | Q | K | K | P | G | Q | A | P | I | L | L | F | Y | G | D | D | N | R | P | S | G | V | P | D | R | F | S | G | D | A | D | G | N | E | A | S | L | T | I | D | G | A | Q | A | E | D | D | A | E | Y | Y | C | S | S | R | D | K | S | G | S | R | L | S | V | F | G | G | G | T | K | L | T | V | L |
| Antigen Details | |
|---|---|
| Antigen chains | O |
| Antigen type | protein |
| Antigen name | 10e8 epitope scaffold t117v2 |
| Antigen species | SYNTHETIC CONSTRUCT |
| Antigen sequence | NAMQGIHFRRHYVRHLPKEVSQNDIIKALASPLINDGMVVSDFADHVITREQNFPTGLPVEPVGVAIPHTDSKYVRQNAISVGILAEPVNFEDAGGEPDPVPVRVVFMLALGNWFDITNVLWWIKAVIQDEDFMQQLLVMNDDEIYQSIYTRISELEHHHHHH |
| CDR Sequences (chothia definition) | |
|---|---|
| CDRH1 | GFDFDNA |
| CDRH2 | TGPGEGWS |
| CDRH3 | TGKYYDFWSGYPPGEEYFQD |
| CDRL1 | EGDSLESHYAS |
| CDRL2 | GDDNRPS |
| CDRL3 | SSRDKSGSRLSV |
| Orientation Angles (from ABangle) | |
|---|---|
| HL | -59.08° |
| HC1 | 70.8° |
| HC2 | 121.05° |
| LC1 | 118.53° |
| LC2 | 81.8° |
| dc | 16.07Å |
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]
