Structure Viewer: 7s5p

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Crystal Structure of Sars-Cov-2 B.1.351 Variant Receptor Binding Domain in complex with Neutralizing antibody Cs23

PDB7s5p
SpeciesHOMO SAPIENS
MethodX-RAY DIFFRACTION
Resolution2.86Å
Number of Fvs1
In complexTrue
Light chain typeLambda
Has constant regionTrue
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>   Fv information

This PDB has 1 Fv(s).

>   H/L
Fv Details
Heavy chainH
Light chainL
Heavy subgroupIGHV3
Light subgroupIGLV3
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 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 Q P G G S L R L S C A A S G F T V S S N Y M N W V R Q A P G K G L E W V S V I Y S G G S T Y Y A D S V K G R F T I S R H N S K N T L Y L Q M N S L R A E D T A V Y Y C A R G T A M A Y G M D V W G Q G T T 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 96 97 98 99 100 101 102 103 104 105 106 107
Y E L T Q P P S V S V A P G Q T A R I T C G G N N I G G Q S V H W Y Q Q K P G Q A P V L V V Y D D S D R P S G I P E R F S G S N S G N T A T L T I S R V E A G D E A D Y Y C Q V W D S S S D H V V F G G G T K L T V L

Antigen Details
Antigen chainsA
Antigen typeprotein
Antigen namespike protein s1
Antigen speciesSEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS2
Antigen sequenceRVQPTESIVRFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGNIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVKGFNCYFPLQSYGFQPTYGVGYQPYRVVVLSFELLHAPATVCGPKKSTNLVKNKCVNFSGHHHHHH

CDR Sequences (chothia definition)
CDRH1GFTVSSN
CDRH2YSGGS
CDRH3GTAMAYGMDV
CDRL1GGNNIGGQSVH
CDRL2DDSDRPS
CDRL3QVWDSSSDHVV

Orientation Angles (from ABangle)
HL-56.88°
HC170.29°
HC2118.27°
LC1122.09°
LC284.55°
dc16.18Å
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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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