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Crystal Structure of Multidonor Hv1-18-Class Broadly Neutralizing influenza a antibody 16.G.07 in complex with a/Hong Kong/1-4-Ma21-1/1968 (H3N2) Hemagglutinin

PDB5kan
SpeciesHOMO SAPIENS
MethodX-RAY DIFFRACTION
Resolution2.785Å
Number of Fvs3
In complexTrue
Light chain typeKappa
Has constant regionTrue
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>   Fv information

This PDB has 3 Fv(s).

>   H/L
Fv Details
Heavy chainH
Light chainL
Heavy subgroupIGHV1
Light subgroupIGKV1
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 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 99 100 100A 100B 100C 100D 100E 100F 100G 100H 100I 100J 100K 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L A Q S E N E L K K P G A S V K V S C K T S G Y T F T R F G M S W V R Q A P G Q G L E W M G W I S G Y T G D T K Y A R S F Q G R L T L T T D T S T G T A Y M E L R S L R S D D T A I Y Y C V R N R V Q M E V S P A T Q S T W Y M D L W G R G T L V S 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
D I Q M T Q V P V S L S A F V G D R V S I T C R A S Q D I S R W L A W Y Q Q K P G R A P K L L I Y A A S S L Q G G V P S R F R G S G S G T E F T L T I S G L Q P E D F A T Y Y C Q Q G S T F P Y T S V L G T

Antigen Details
Antigen chainsB,C
Antigen typeprotein
Antigen namehemagglutinin ha2; hemagglutinin ha1
Antigen speciesINFLUENZA A VIRUS (STRAIN A/HONG KONG/1/1968H3N2)
Antigen sequenceGAIAGFIENGWEGMIDGWYGFRHQNSEGTGQAADLKSTQAAIDQINGKLNRVIEKTNEKFHQIEKEFSEVEGRIQDLEKYVEDTKIDLWSYNAELLVALENQHTIDLTDSEMNKLFEKTRRQLRENAEDMGNGCFKIYHKCDNACIESIRNGTYDHDVYRDEALNNRFQIKGV/NSTATLCLGHHAVPNGTLVKTITDDQIEVTNATELVQSSSTGKICNNPHRILDGIDCTLIDALLGDPHCDVFQNETWDLFVERSKAFSNCYPYDVPDYASLRSLVASSGTLEFITEGFTWTGVTQNGGSNACKRGPGSGFFSRLNWLTKSGSTYPVLNVTMPNNDNFDKLYIWGVHHPSTNQEQTSLYVQASGRVTVSTRRSQQTIIPNIESRPWVRGLSSRISIYWTIVKPGDVLVINSNGNLIAPRGYFKMRTGKSSIMRSDAPIDTCISECITPNGSIPNDKPFQNVNKITYGACPKYVKQNTLKLATGMRNVPEK

CDR Sequences (chothia definition)
CDRH1GYTFTRF
CDRH2SGYTGD
CDRH3NRVQMEVSPATQSTWYMDL
CDRL1RASQDISRWLA
CDRL2AASSLQG
CDRL3QQGSTFPYT

Orientation Angles (from ABangle)
HL-52.47°
HC171.18°
HC2119.69°
LC1123.68°
LC282.57°
dc16.44Å
>   J/K
Fv Details
Heavy chainJ
Light chainK
Heavy subgroupIGHV1
Light subgroupIGKV1
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 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 99 100 100A 100B 100C 100D 100E 100F 100G 100H 100I 100J 100K 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L A Q S E N E L K K P G A S V K V S C K T S G Y T F T R F G M S W V R Q A P G Q G L E W M G W I S G Y T G D T K Y A R S F Q G R L T L T T D T S T G T A Y M E L R S L R S D D T A I Y Y C V R N R V Q M E V S P A T Q S T W Y M D L W G R G T L V S 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
D I Q M T Q V P V S L S A F V G D R V S I T C R A S Q D I S R W L A W Y Q Q K P G R A P K L L I Y A A S S L Q G G V P S R F R G S G S G T E F T L T I S G L Q P E D F A T Y Y C Q Q G S T F P Y T S V L G T

Antigen Details
Antigen chainsF,A
Antigen typeprotein
Antigen namehemagglutinin ha2; hemagglutinin ha1
Antigen speciesINFLUENZA A VIRUS (STRAIN A/HONG KONG/1/1968H3N2)
Antigen sequenceGAIAGFIENGWEGMIDGWYGFRHQNSEGTGQAADLKSTQAAIDQINGKLNRVIEKTNEKFHQIEKEFSEVEGRIQDLEKYVEDTKIDLWSYNAELLVALENQHTIDLTDSEMNKLFEKTRRQLRENAEDMGNGCFKIYHKCDNACIESIRNGTYDHDVYRDEALNNRFQIKGV/NSTATLCLGHHAVPNGTLVKTITDDQIEVTNATELVQSSSTGKICNNPHRILDGIDCTLIDALLGDPHCDVFQNETWDLFVERSKAFSNCYPYDVPDYASLRSLVASSGTLEFITEGFTWTGVTQNGGSNACKRGPGSGFFSRLNWLTKSGSTYPVLNVTMPNNDNFDKLYIWGVHHPSTNQEQTSLYVQASGRVTVSTRRSQQTIIPNIESRPWVRGLSSRISIYWTIVKPGDVLVINSNGNLIAPRGYFKMRTGKSSIMRSDAPIDTCISECITPNGSIPNDKPFQNVNKITYGACPKYVKQNTLKLATGMRNVPEK

CDR Sequences (chothia definition)
CDRH1GYTFTRF
CDRH2SGYTGD
CDRH3NRVQMEVSPATQSTWYMDL
CDRL1RASQDISRWLA
CDRL2AASSLQG
CDRL3QQGSTFPYT

Orientation Angles (from ABangle)
HL-53.54°
HC170.9°
HC2119.39°
LC1122.9°
LC282.31°
dc16.49Å
>   G/I
Fv Details
Heavy chainG
Light chainI
Heavy subgroupIGHV1
Light subgroupIGKV1
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 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 99 100 100A 100B 100C 100D 100E 100F 100G 100H 100I 100J 100K 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L A Q S E N E L K K P G A S V K V S C K T S G Y T F T R F G M S W V R Q A P G Q G L E W M G W I S G Y T G D T K Y A R S F Q G R L T L T T D T S T G T A Y M E L R S L R S D D T A I Y Y C V R N R V Q M E V S P A T Q S T W Y M D L W G R G T L V S 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
D I Q M T Q V P V S L S A F V G D R V S I T C R A S Q D I S R W L A W Y Q Q K P G R A P K L L I Y A A S S L Q G G V P S R F R G S G S G T E F T L T I S G L Q P E D F A T Y Y C Q Q G S T F P Y T S V L G T

Antigen Details
Antigen chainsD,E
Antigen typeprotein
Antigen namehemagglutinin ha2; hemagglutinin ha1
Antigen speciesINFLUENZA A VIRUS (STRAIN A/HONG KONG/1/1968H3N2)
Antigen sequenceGAIAGFIENGWEGMIDGWYGFRHQNSEGTGQAADLKSTQAAIDQINGKLNRVIEKTNEKFHQIEKEFSEVEGRIQDLEKYVEDTKIDLWSYNAELLVALENQHTIDLTDSEMNKLFEKTRRQLRENAEDMGNGCFKIYHKCDNACIESIRNGTYDHDVYRDEALNNRFQIKGV/NSTATLCLGHHAVPNGTLVKTITDDQIEVTNATELVQSSSTGKICNNPHRILDGIDCTLIDALLGDPHCDVFQNETWDLFVERSKAFSNCYPYDVPDYASLRSLVASSGTLEFITEGFTWTGVTQNGGSNACKRGPGSGFFSRLNWLTKSGSTYPVLNVTMPNNDNFDKLYIWGVHHPSTNQEQTSLYVQASGRVTVSTRRSQQTIIPNIESRPWVRGLSSRISIYWTIVKPGDVLVINSNGNLIAPRGYFKMRTGKSSIMRSDAPIDTCISECITPNGSIPNDKPFQNVNKITYGACPKYVKQNTLKLATGMRNVPEK

CDR Sequences (chothia definition)
CDRH1GYTFTRF
CDRH2SGYTGD
CDRH3NRVQMEVSPATQSTWYMDL
CDRL1RASQDISRWLA
CDRL2AASSLQG
CDRL3QQGSTFPYT

Orientation Angles (from ABangle)
HL-56.08°
HC171.11°
HC2118.6°
LC1123.24°
LC280.63°
dc16.37Å
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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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