Structure Viewer: 8dfg

>   Structure details

Crystal Structure of Potently Neutralizing Human Monoclonal antibody 42D6 Fab in complex with Msp1-19

PDB8dfg
SpeciesHOMO SAPIENS
MethodX-RAY DIFFRACTION
Resolution
Number of Fvs2
In complexTrue
Light chain typeKappa
Has constant regionTrue
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>   Fv information

This PDB has 2 Fv(s).

>   H/L
Fv Details
Heavy chainH
Light chainL
Heavy subgroupIGHV4
Light subgroupIGKV3
SpeciesHOMO 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 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 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G P G L V K S S E T L S L T C N V F R G S I G S Y Y W S W I R Q P A G R G L E W I G R V Y S N G R A N Y N P S F K S R V T I S V D K S K N Q F S L R L T S V T A A D T A V Y Y C A R E I Y Y H D S T G S L Y Y F D Y W G Q G T L V T V S S

Light 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 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
E I V M T Q S P A T L S V S P G E R A T L S C R A S Q T V S S S L A W Y Q H K P G Q A P R L L I Y G A S T R A T G V P V R F S G S G S G T E F T L T I N S M H S E D F A I Y Y C L Q F N D W P P T F G Q G T K V E I K

Antigen Details
Antigen chainsA
Antigen typeprotein
Antigen namemerozoite surface protein 1
Antigen speciesPLASMODIUM FALCIPARUM 3D7
Antigen sequenceETGNIAQHQCVKKQCPENSGCFRHLDEREECKCLLNYKQEGDKCVENPNPACNENNGGCDADATCTEEDSGSSRKKITCECTKPDSYPLFDGIFCSGTKHHHHHH

CDR Sequences (chothia definition)
CDRH1RGSIGSY
CDRH2YSNGR
CDRH3EIYYHDSTGSLYYFDY
CDRL1RASQTVSSSLA
CDRL2GASTRAT
CDRL3LQFNDWPPT

Orientation Angles (from ABangle)
HL-68.45°
HC170.59°
HC2113.49°
LC1120.37°
LC276.12°
dc16.08Å
>   I/M
Fv Details
Heavy chainI
Light chainM
Heavy subgroupIGHV4
Light subgroupIGKV3
SpeciesHOMO 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 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 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G P G L V K S S E T L S L T C N V F R G S I G S Y Y W S W I R Q P A G R G L E W I G R V Y S N G R A N Y N P S F K S R V T I S V D K S K N Q F S L R L T S V T A A D T A V Y Y C A R E I Y Y H D S T G S L Y Y F D Y W G Q G T L V T V S S

Light 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 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
E I V M T Q S P A T L S V S P G E R A T L S C R A S Q T V S S S L A W Y Q H K P G Q A P R L L I Y G A S T R A T G V P V R F S G S G S G T E F T L T I N S M H S E D F A I Y Y C L Q F N D W P P T F G Q G T K V E I K

Antigen Details
Antigen chainsB
Antigen typeprotein
Antigen namemerozoite surface protein 1
Antigen speciesPLASMODIUM FALCIPARUM 3D7
Antigen sequenceETGNIAQHQCVKKQCPENSGCFRHLDEREECKCLLNYKQEGDKCVENPNPACNENNGGCDADATCTEEDSGSSRKKITCECTKPDSYPLFDGIFCSGTKHHHHHH

CDR Sequences (chothia definition)
CDRH1RGSIGSY
CDRH2YSNGR
CDRH3EIYYHDSTGSLYYFDY
CDRL1RASQTVSSSLA
CDRL2GASTRAT
CDRL3LQFNDWPPT

Orientation Angles (from ABangle)
HL-68.4°
HC170.53°
HC2113.49°
LC1120.5°
LC276.15°
dc16.1Å
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Chothia-numbered structure Download
IMGT-numbered structure Download
Non-annotated structure from the PDB Download
Summary file for this antibody Download

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]

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