Structure Viewer: 5aaw

>   Structure details

Structure of a Redesigned Cross-Reactive antibody to Dengue Virus with increased in Vivo Potency

PDB5aaw
SpeciesMUS MUSCULUS
MethodX-RAY DIFFRACTION
Resolution3.27Å
Number of Fvs6
In complexTrue
Light chain typeunknown
Has constant regionFalse
>   Structure visualisation
Please note the WebGL plugin needs to be enabled to use PV Viewer.

Display options:














>   Fv information

This PDB has 6 Fv(s).

>   K/K
Fv Details
Heavy chainK
Light chainK
Heavy subgroupunknown
Light subgroupunknown
SpeciesMUS MUSCULUS
In complex?True
scFv?True
Has constant domain?False

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

Antigen Details
Antigen chainsL
Antigen typeprotein
Antigen namedengue serotype 4 envelope protein domain 3
Antigen speciesDENGUE VIRUS
Antigen sequenceMRIKGMSYTMCSGKFSIDKEMAETQHGTTVVKVKYEGAGAPCKVPIEIRDVNKEKVVGRIISSTPLAENTNSVTNIELEPPFGDSYIVIGVGNSALTLHWFRKGSSIGKHHHHHH

CDR Sequences (chothia definition)
CDRH1GFNIKDV
CDRH2DPENGD
CDRH3GWEGFAY
CDRL1RASENVDKYGNSFMH
CDRL2RASELQW
CDRL3QRSNEVPWT

Orientation Angles (from ABangle)
HL-52.19°
HC169.3°
HC2117.64°
LC1121.71°
LC285.33°
dc16.15Å
>   D/D
Fv Details
Heavy chainD
Light chainD
Heavy subgroupunknown
Light subgroupunknown
SpeciesMUS MUSCULUS
In complex?True
scFv?True
Has constant domain?False

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

Antigen Details
Antigen chainsE
Antigen typeprotein
Antigen namedengue serotype 4 envelope protein domain 3
Antigen speciesDENGUE VIRUS
Antigen sequenceMRIKGMSYTMCSGKFSIDKEMAETQHGTTVVKVKYEGAGAPCKVPIEIRDVNKEKVVGRIISSTPLAENTNSVTNIELEPPFGDSYIVIGVGNSALTLHWFRKGSSIGKHHHHHH

CDR Sequences (chothia definition)
CDRH1GFNIKDV
CDRH2DPENGD
CDRH3GWEGFAY
CDRL1RASENVDKYGNSFMH
CDRL2RASELQW
CDRL3QRSNEVPWT

Orientation Angles (from ABangle)
HL-52.28°
HC169.19°
HC2117.53°
LC1121.41°
LC284.62°
dc16.18Å
>   H/H
Fv Details
Heavy chainH
Light chainH
Heavy subgroupunknown
Light subgroupunknown
SpeciesMUS MUSCULUS
In complex?True
scFv?True
Has constant domain?False

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

Antigen Details
Antigen chainsI
Antigen typeprotein
Antigen namedengue serotype 4 envelope protein domain 3
Antigen speciesDENGUE VIRUS
Antigen sequenceMRIKGMSYTMCSGKFSIDKEMAETQHGTTVVKVKYEGAGAPCKVPIEIRDVNKEKVVGRIISSTPLAENTNSVTNIELEPPFGDSYIVIGVGNSALTLHWFRKGSSIGKHHHHHH

CDR Sequences (chothia definition)
CDRH1GFNIKDV
CDRH2DPENGD
CDRH3GWEGFAY
CDRL1RASENVDKYGNSFMH
CDRL2RASELQW
CDRL3QRSNEVPWT

Orientation Angles (from ABangle)
HL-51.45°
HC169.75°
HC2118.0°
LC1121.42°
LC285.06°
dc16.07Å
>   B/B
Fv Details
Heavy chainB
Light chainB
Heavy subgroupunknown
Light subgroupunknown
SpeciesMUS MUSCULUS
In complex?True
scFv?True
Has constant domain?False

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

Antigen Details
Antigen chainsJ
Antigen typeprotein
Antigen namedengue serotype 4 envelope protein domain 3
Antigen speciesDENGUE VIRUS
Antigen sequenceMRIKGMSYTMCSGKFSIDKEMAETQHGTTVVKVKYEGAGAPCKVPIEIRDVNKEKVVGRIISSTPLAENTNSVTNIELEPPFGDSYIVIGVGNSALTLHWFRKGSSIGKHHHHHH

CDR Sequences (chothia definition)
CDRH1GFNIKDV
CDRH2DPENGD
CDRH3GWEGFAY
CDRL1RASENVDKYGNSFMH
CDRL2RASELQW
CDRL3QRSNEVPWT

Orientation Angles (from ABangle)
HL-51.38°
HC169.45°
HC2118.0°
LC1121.53°
LC284.87°
dc16.15Å
>   A/A
Fv Details
Heavy chainA
Light chainA
Heavy subgroupunknown
Light subgroupunknown
SpeciesMUS MUSCULUS
In complex?True
scFv?True
Has constant domain?False

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

Antigen Details
Antigen chainsC
Antigen typeprotein
Antigen namedengue serotype 4 envelope protein domain 3
Antigen speciesDENGUE VIRUS
Antigen sequenceMRIKGMSYTMCSGKFSIDKEMAETQHGTTVVKVKYEGAGAPCKVPIEIRDVNKEKVVGRIISSTPLAENTNSVTNIELEPPFGDSYIVIGVGNSALTLHWFRKGSSIGKHHHHHH

CDR Sequences (chothia definition)
CDRH1GFNIKDV
CDRH2DPENGD
CDRH3GWEGFAY
CDRL1RASENVDKYGNSFMH
CDRL2RASELQW
CDRL3QRSNEVPWT

Orientation Angles (from ABangle)
HL-52.55°
HC169.79°
HC2118.51°
LC1121.82°
LC283.35°
dc16.12Å
>   F/F
Fv Details
Heavy chainF
Light chainF
Heavy subgroupunknown
Light subgroupunknown
SpeciesMUS MUSCULUS
In complex?True
scFv?True
Has constant domain?False

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

Antigen Details
Antigen chainsG
Antigen typeprotein
Antigen namedengue serotype 4 envelope protein domain 3
Antigen speciesDENGUE VIRUS
Antigen sequenceMRIKGMSYTMCSGKFSIDKEMAETQHGTTVVKVKYEGAGAPCKVPIEIRDVNKEKVVGRIISSTPLAENTNSVTNIELEPPFGDSYIVIGVGNSALTLHWFRKGSSIGKHHHHHH

CDR Sequences (chothia definition)
CDRH1GFNIKDV
CDRH2DPENGD
CDRH3GWEGFAY
CDRL1RASENVDKYGNSFMH
CDRL2RASELQW
CDRL3QRSNEVPWT

Orientation Angles (from ABangle)
HL-53.4°
HC170.13°
HC2119.34°
LC1121.55°
LC282.76°
dc16.1Å
>   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]

Our privacy policy