Structure Viewer: 9b8g

>   Structure details

2C9 Fab antibody Fragment against the E Protein of the Yellow Fever Virus

PDB9b8g
SpeciesHOMO SAPIENS
MethodX-RAY DIFFRACTION
Resolution2.66Å
Number of Fvs3
In complexFalse
Light chain typeKappa
Has constant regionTrue
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>   Fv information

This PDB has 3 Fv(s).

>   A/B
Fv Details
Heavy chainA
Light chainB
Heavy subgroupIGHV5
Light subgroupIGKV14
SpeciesHOMO SAPIENS
In complex?False
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 101 102 103 104 105 106 107 108 109 110 111 112 113
E V K L V E S G G G L V K P G G S L K L S C A A S G F T F T N Y A M S W V R Q T P E K R L E W V A S I S S G H T P Y Y P D S V K G R F T I S R D N A R N I L F L Q M S S L R S E D T A M Y Y C A R G D Y Y G S V Y S A M D Y W G Q G T S L 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 R M T Q S P S S M Y A S L G E R V T V T C K A S Q D I N S Y L S W L Q Q K P G K S P K T L I Y R A N R L F D G V P S R F S G S G S G Q D Y S L T I S S L E Y E D M G I F Y C L Q Y D E F P F T F G S G T K L E L K


CDR Sequences (chothia definition)
CDRH1GFTFTNY
CDRH2SSGHT
CDRH3GDYYGSVYSAMDY
CDRL1KASQDINSYLS
CDRL2RANRLFD
CDRL3LQYDEFPFT

Orientation Angles (from ABangle)
HL-63.79°
HC168.65°
HC2115.76°
LC1116.82°
LC283.53°
dc16.3Å
>   C/D
Fv Details
Heavy chainC
Light chainD
Heavy subgroupIGHV5
Light subgroupIGKV14
SpeciesHOMO SAPIENS
In complex?False
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 101 102 103 104 105 106 107 108 109 110 111 112 113
E V K L V E S G G G L V K P G G S L K L S C A A S G F T F T N Y A M S W V R Q T P E K R L E W V A S I S S G H T P Y Y P D S V K G R F T I S R D N A R N I L F L Q M S S L R S E D T A M Y Y C A R G D Y Y G S V Y S A M D Y W G Q G T S L 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 R M T Q S P S S M Y A S L G E R V T V T C K A S Q D I N S Y L S W L Q Q K P G K S P K T L I Y R A N R L F D G V P S R F S G S G S G Q D Y S L T I S S L E Y E D M G I F Y C L Q Y D E F P F T F G S G T K L E L K


CDR Sequences (chothia definition)
CDRH1GFTFTNY
CDRH2SSGHT
CDRH3GDYYGSVYSAMDY
CDRL1KASQDINSYLS
CDRL2RANRLFD
CDRL3LQYDEFPFT

Orientation Angles (from ABangle)
HL-64.68°
HC170.13°
HC2117.6°
LC1116.4°
LC285.97°
dc16.03Å
>   H/L
Fv Details
Heavy chainH
Light chainL
Heavy subgroupIGHV5
Light subgroupIGKV14
SpeciesHOMO SAPIENS
In complex?False
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 101 102 103 104 105 106 107 108 109 110 111 112 113
E V K L V E S G G G L V K P G G S L K L S C A A S G F T F T N Y A M S W V R Q T P E K R L E W V A S I S S G H T P Y Y P D S V K G R F T I S R D N A R N I L F L Q M S S L R S E D T A M Y Y C A R G D Y Y G S V Y S A M D Y W G Q G T S L 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 R M T Q S P S S M Y A S L G E R V T V T C K A S Q D I N S Y L S W L Q Q K P G K S P K T L I Y R A N R L F D G V P S R F S G S G S G Q D Y S L T I S S L E Y E D M G I F Y C L Q Y D E F P F T F G S G T K L E L K


CDR Sequences (chothia definition)
CDRH1GFTFTNY
CDRH2SSGHT
CDRH3GDYYGSVYSAMDY
CDRL1KASQDINSYLS
CDRL2RANRLFD
CDRL3LQYDEFPFT

Orientation Angles (from ABangle)
HL-66.21°
HC169.03°
HC2117.49°
LC1116.92°
LC284.34°
dc16.07Å
>   Downloads

Additional links and files for download: see help for more details.

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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