Structure Viewer: 9cbn

>   Structure details

Hastv1 Spike in complex with Neutralizing Fabs 3H4 and 3B4

PDB9cbn
SpeciesMUS MUSCULUS
MethodELECTRON MICROSCOPY
Resolution3.33Å
Number of Fvs3
In complexTrue
Light chain typeKappa,Lambda
Has constant regionTrue
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>   Fv information

This PDB has 3 Fv(s).

>   A/B
Fv Details
Heavy chainA
Light chainB
Heavy subgroupIGHV1
Light subgroupIGKV5
SpeciesMUS MUSCULUS
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 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 99 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L H Q P G A E L V K P G A S V N L S C K A S G Y T F T S Y W M H W V K Q R P G Q G L E W I G E I N P S S G R A N Y N E K F K N K A T L T V D K S S I T A Y M H L S S L T S E D S A V Y Y C H W D Y Y A M D Y W G Q G T S 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
D I V L T Q S P A T L S V T P G D S V S L S C R A S Q S I S N N L H W Y Q Q K S H E S P R L L F K S A S Q S I S G I P S R F S G S G S G T D F T L S I N S V E T E D F G M Y F C Q Q T N S W P L T F G T G T K L D L K

Antigen Details
Antigen chainsC
Antigen typeprotein
Antigen namestructural protein
Antigen speciesHUMAN ASTROVIRUS 1
Antigen sequenceMGEEYKVVLTFGSPMSPNANNKQTWVNKPLDAPSGHYNVKIAKDVDHYLTMQGFTSIASVDWYTIDFQPSEAPAPIKGLQVLVNISKKADVYAVKQFVTAQTNNKHQVTSLFLVKVTTGFQVNNYLSYFYRASATGDATTNLLVRGDTYTAGISFTQGGWYLLTNTSIVDGAMPPGWVWNNVELKTNTAYHMDKGLVHLIMPLPESTQMCYEMLTSIPAAAELALVPR

CDR Sequences (chothia definition)
CDRH1GYTFTSY
CDRH2NPSSGR
CDRH3DYYAMDY
CDRL1RASQSISNNLH
CDRL2SASQSIS
CDRL3QQTNSWPLT

Orientation Angles (from ABangle)
HL-56.31°
HC169.35°
HC2116.22°
LC1119.88°
LC285.72°
dc16.8Å
>   E/F
Fv Details
Heavy chainE
Light chainF
Heavy subgroupIGHV2
Light subgroupIGLV1
SpeciesMUS MUSCULUS
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 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L K E S G P G L V A P S Q S L S I S C T V S G F S L T T F G I H W I R Q P P G K G L E W L G V I W A A G T T N Y N S T L K S R L T I T K D N S R S Q V F L K M N S L Q T Y D T A I Y Y C V R E D Y D Y F F G L D Y W G Q G T S V T V S S

Light chain

1 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 30A 30B 30C 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
Q A V V T Q E S A L T T S P G E T V T L T C R S S T G A V T T S N Y A S W V Q E K P D H L F I G L I G G T N N R A P G V P A R F S G S L I G D K A A L T I T G A Q T D D E A I Y F C A L W F S N H W V F G G G T K L T V L

Antigen Details
Antigen chainsD
Antigen typeprotein
Antigen namestructural protein
Antigen speciesHUMAN ASTROVIRUS 1
Antigen sequenceMGEEYKVVLTFGSPMSPNANNKQTWVNKPLDAPSGHYNVKIAKDVDHYLTMQGFTSIASVDWYTIDFQPSEAPAPIKGLQVLVNISKKADVYAVKQFVTAQTNNKHQVTSLFLVKVTTGFQVNNYLSYFYRASATGDATTNLLVRGDTYTAGISFTQGGWYLLTNTSIVDGAMPPGWVWNNVELKTNTAYHMDKGLVHLIMPLPESTQMCYEMLTSIPAAAELALVPR

CDR Sequences (chothia definition)
CDRH1GFSLTTF
CDRH2WAAGT
CDRH3EDYDYFFGLDY
CDRL1RSSTGAVTTSNYAS
CDRL2GTNNRAP
CDRL3ALWFSNHWV

Orientation Angles (from ABangle)
HL-62.45°
HC167.06°
HC2113.39°
LC1115.44°
LC282.98°
dc16.7Å
>   G/H
Fv Details
Heavy chainG
Light chainH
Heavy subgroupIGHV2
Light subgroupIGLV1
SpeciesMUS MUSCULUS
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 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L K E S G P G L V A P S Q S L S I S C T V S G F S L T T F G I H W I R Q P P G K G L E W L G V I W A A G T T N Y N S T L K S R L T I T K D N S R S Q V F L K M N S L Q T Y D T A I Y Y C V R E D Y D Y F F G L D Y W G Q G T S V T V S S

Light chain

1 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 30A 30B 30C 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
Q A V V T Q E S A L T T S P G E T V T L T C R S S T G A V T T S N Y A S W V Q E K P D H L F I G L I G G T N N R A P G V P A R F S G S L I G D K A A L T I T G A Q T D D E A I Y F C A L W F S N H W V F G G G T K L T V L

Antigen Details
Antigen chainsC
Antigen typeprotein
Antigen namestructural protein
Antigen speciesHUMAN ASTROVIRUS 1
Antigen sequenceMGEEYKVVLTFGSPMSPNANNKQTWVNKPLDAPSGHYNVKIAKDVDHYLTMQGFTSIASVDWYTIDFQPSEAPAPIKGLQVLVNISKKADVYAVKQFVTAQTNNKHQVTSLFLVKVTTGFQVNNYLSYFYRASATGDATTNLLVRGDTYTAGISFTQGGWYLLTNTSIVDGAMPPGWVWNNVELKTNTAYHMDKGLVHLIMPLPESTQMCYEMLTSIPAAAELALVPR

CDR Sequences (chothia definition)
CDRH1GFSLTTF
CDRH2WAAGT
CDRH3EDYDYFFGLDY
CDRL1RSSTGAVTTSNYAS
CDRL2GTNNRAP
CDRL3ALWFSNHWV

Orientation Angles (from ABangle)
HL-60.64°
HC167.65°
HC2116.28°
LC1114.93°
LC284.26°
dc16.52Å
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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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