Structure Viewer: 9axn

>   Structure details

Crystal Structure of anti-Fentanyl antibody Hy11-6B2_Mu Fab in complex with Fentanyl

PDB9axn
SpeciesMUS MUSCULUS
MethodX-RAY DIFFRACTION
Resolution2.4Å
Number of Fvs8
In complexTrue
Light chain typeKappa
Has constant regionTrue
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>   Fv information

This PDB has 8 Fv(s).

>   H/L
Fv Details
Heavy chainH
Light chainL
Heavy subgroupIGHV1
Light subgroupIGKV6
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 R L Q Q S G P E L V K P G A S V R I S C K A S G H T F T S Y Y I Y W V K Q R P G Q G L E W I G W I Y F G N I N L K Y N E K F K G K A T L T A D K S S S T A Y I Q L S S L T S E D S A V Y F C A S E D G P G A Y W G Q G T L V T V S A

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

Antigen Details
Antigen chainsH
Antigen typeHapten
Antigen nameN-phenyl-N-[1-(2-phenylethyl)piperidin-4-yl]propanamide
Antigen speciesMUS MUSCULUS
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GHTFTSY
CDRH2YFGNIN
CDRH3EDGPGAY
CDRL1KASQNVGTNVA
CDRL2SASYRYS
CDRL3QQYNSYPLT

Orientation Angles (from ABangle)
HL-60.56°
HC171.02°
HC2116.48°
LC1119.34°
LC286.57°
dc15.9Å
>   A/B
Fv Details
Heavy chainA
Light chainB
Heavy subgroupIGHV1
Light subgroupIGKV6
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 R L Q Q S G P E L V K P G A S V R I S C K A S G H T F T S Y Y I Y W V K Q R P G Q G L E W I G W I Y F G N I N L K Y N E K F K G K A T L T A D K S S S T A Y I Q L S S L T S E D S A V Y F C A S E D G P G A Y W G Q G T L V T V S A

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

Antigen Details
Antigen chainsA
Antigen typeHapten
Antigen nameN-phenyl-N-[1-(2-phenylethyl)piperidin-4-yl]propanamide
Antigen speciesMUS MUSCULUS
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GHTFTSY
CDRH2YFGNIN
CDRH3EDGPGAY
CDRL1KASQNVGTNVA
CDRL2SASYRYS
CDRL3QQYNSYPLT

Orientation Angles (from ABangle)
HL-63.06°
HC172.62°
HC2116.54°
LC1117.84°
LC283.98°
dc15.31Å
>   C/D
Fv Details
Heavy chainC
Light chainD
Heavy subgroupIGHV1
Light subgroupIGKV6
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 R L Q Q S G P E L V K P G A S V R I S C K A S G H T F T S Y Y I Y W V K Q R P G Q G L E W I G W I Y F G N I N L K Y N E K F K G K A T L T A D K S S S T A Y I Q L S S L T S E D S A V Y F C A S E D G P G A Y W G Q G T L V T V S A

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

Antigen Details
Antigen chainsC
Antigen typeHapten
Antigen nameN-phenyl-N-[1-(2-phenylethyl)piperidin-4-yl]propanamide
Antigen speciesMUS MUSCULUS
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GHTFTSY
CDRH2YFGNIN
CDRH3EDGPGAY
CDRL1KASQNVGTNVA
CDRL2SASYRYS
CDRL3QQYNSYPLT

Orientation Angles (from ABangle)
HL-59.55°
HC171.03°
HC2116.94°
LC1121.63°
LC286.54°
dc15.9Å
>   E/F
Fv Details
Heavy chainE
Light chainF
Heavy subgroupIGHV1
Light subgroupIGKV6
SpeciesMUS MUSCULUS
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 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 R L Q Q S G P E L V K P G A S V R I S C K A S G H T F T S Y Y I Y W V K Q R P G Q G L E W I G W I Y F G N I N L K Y N E K F K G K A T L T A D K S S S T A Y I Q L S S L T S E D S A V Y F C A S E D G P G A Y W G Q G T L V T V S A

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


CDR Sequences (chothia definition)
CDRH1GHTFTSY
CDRH2YFGNIN
CDRH3EDGPGAY
CDRL1KASQNVGTNVA
CDRL2SASYRYS
CDRL3QQYNSYPLT

Orientation Angles (from ABangle)
HL-59.87°
HC170.7°
HC2117.18°
LC1121.26°
LC286.62°
dc15.9Å
>   I/J
Fv Details
Heavy chainI
Light chainJ
Heavy subgroupIGHV1
Light subgroupIGKV6
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 R L Q Q S G P E L V K P G A S V R I S C K A S G H T F T S Y Y I Y W V K Q R P G Q G L E W I G W I Y F G N I N L K Y N E K F K G K A T L T A D K S S S T A Y I Q L S S L T S E D S A V Y F C A S E D G P G A Y W G Q G T L V T V S A

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

Antigen Details
Antigen chainsI
Antigen typeHapten
Antigen nameN-phenyl-N-[1-(2-phenylethyl)piperidin-4-yl]propanamide
Antigen speciesMUS MUSCULUS
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GHTFTSY
CDRH2YFGNIN
CDRH3EDGPGAY
CDRL1KASQNVGTNVA
CDRL2SASYRYS
CDRL3QQYNSYPLT

Orientation Angles (from ABangle)
HL-61.2°
HC170.36°
HC2116.94°
LC1120.75°
LC286.21°
dc15.77Å
>   M/N
Fv Details
Heavy chainM
Light chainN
Heavy subgroupIGHV1
Light subgroupIGKV6
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 R L Q Q S G P E L V K P G A S V R I S C K A S G H T F T S Y Y I Y W V K Q R P G Q G L E W I G W I Y F G N I N L K Y N E K F K G K A T L T A D K S S S T A Y I Q L S S L T S E D S A V Y F C A S E D G P G A Y W G Q G T L V T V S A

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

Antigen Details
Antigen chainsM
Antigen typeHapten
Antigen nameN-phenyl-N-[1-(2-phenylethyl)piperidin-4-yl]propanamide
Antigen speciesMUS MUSCULUS
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GHTFTSY
CDRH2YFGNIN
CDRH3EDGPGAY
CDRL1KASQNVGTNVA
CDRL2SASYRYS
CDRL3QQYNSYPLT

Orientation Angles (from ABangle)
HL-60.63°
HC170.7°
HC2117.52°
LC1121.29°
LC286.61°
dc16.02Å
>   O/P
Fv Details
Heavy chainO
Light chainP
Heavy subgroupIGHV1
Light subgroupIGKV6
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 R L Q Q S G P E L V K P G A S V R I S C K A S G H T F T S Y Y I Y W V K Q R P G Q G L E W I G W I Y F G N I N L K Y N E K F K G K A T L T A D K S S S T A Y I Q L S S L T S E D S A V Y F C A S E D G P G A Y W G Q G T L V T V S A

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

Antigen Details
Antigen chainsO
Antigen typeHapten
Antigen nameN-phenyl-N-[1-(2-phenylethyl)piperidin-4-yl]propanamide
Antigen speciesMUS MUSCULUS
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GHTFTSY
CDRH2YFGNIN
CDRH3EDGPGAY
CDRL1KASQNVGTNVA
CDRL2SASYRYS
CDRL3QQYNSYPLT

Orientation Angles (from ABangle)
HL-61.53°
HC171.66°
HC2115.62°
LC1119.37°
LC285.05°
dc15.71Å
>   Q/R
Fv Details
Heavy chainQ
Light chainR
Heavy subgroupIGHV1
Light subgroupIGKV6
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 R L Q Q S G P E L V K P G A S V R I S C K A S G H T F T S Y Y I Y W V K Q R P G Q G L E W I G W I Y F G N I N L K Y N E K F K G K A T L T A D K S S S T A Y I Q L S S L T S E D S A V Y F C A S E D G P G A Y W G Q G T L V T V S A

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

Antigen Details
Antigen chainsR
Antigen typeHapten
Antigen nameN-phenyl-N-[1-(2-phenylethyl)piperidin-4-yl]propanamide
Antigen speciesMUS MUSCULUS
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GHTFTSY
CDRH2YFGNIN
CDRH3EDGPGAY
CDRL1KASQNVGTNVA
CDRL2SASYRYS
CDRL3QQYNSYPLT

Orientation Angles (from ABangle)
HL-62.22°
HC171.68°
HC2116.02°
LC1118.66°
LC285.29°
dc15.63Å
>   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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