Structure Viewer: 4fqq

>   Structure details

Crystal Structure of Germline antibody Pgt121-Gl Fab

PDB4fqq
SpeciesHOMO SAPIENS
MethodX-RAY DIFFRACTION
Resolution2.42Å
Number of Fvs4
In complexTrue
Light chain typeLambda
Has constant regionTrue
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>   Fv information

This PDB has 4 Fv(s).

>   B/A
Fv Details
Heavy chainB
Light chainA
Heavy subgroupIGHV4
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 52A 52B 53 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 100L 100M 100N 100O 100P 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G P G L V K P S E T L S L T C T V S G G S I S S Y Y W S W I R Q P P G K G L E W I G Y I Y Y S G S T N Y N P S L K S R V T I S V D T S K N Q F S L K L S S V T A A D T A V Y Y C A R T Q Q G K R I Y G V V S F G D Y Y Y Y Y Y M D V W G K G T T 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 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 95C 96 97 98 99 100 101 102 103 104 105 106 107
S Y V 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 S K 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 P W V F G G G T K L T V L

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen speciesSYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GGSISSY
CDRH2YYSGS
CDRH3TQQGKRIYGVVSFGDYYYYYYMDV
CDRL1GGNNIGSKSVH
CDRL2DDSDRPS
CDRL3QVWDSSSDHPWV

Orientation Angles (from ABangle)
HL-55.9°
HC170.84°
HC2119.71°
LC1124.09°
LC286.96°
dc16.32Å
>   H/L
Fv Details
Heavy chainH
Light chainL
Heavy subgroupIGHV4
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 52A 52B 53 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 100L 100M 100N 100O 100P 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G P G L V K P S E T L S L T C T V S G G S I S S Y Y W S W I R Q P P G K G L E W I G Y I Y Y S G S T N Y N P S L K S R V T I S V D T S K N Q F S L K L S S V T A A D T A V Y Y C A R T Q Q G K R I Y G V V S F G D Y Y Y Y Y Y M D V W G K G T T 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 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 95C 96 97 98 99 100 101 102 103 104 105 106 107
S Y V 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 S K 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 P W V F G G G T K L T V L

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen speciesSYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GGSISSY
CDRH2YYSGS
CDRH3TQQGKRIYGVVSFGDYYYYYYMDV
CDRL1GGNNIGSKSVH
CDRL2DDSDRPS
CDRL3QVWDSSSDHPWV

Orientation Angles (from ABangle)
HL-56.26°
HC170.68°
HC2119.78°
LC1123.99°
LC286.72°
dc16.31Å
>   F/E
Fv Details
Heavy chainF
Light chainE
Heavy subgroupIGHV4
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 52A 52B 53 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 100L 100M 100N 100O 100P 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G P G L V K P S E T L S L T C T V S G G S I S S Y Y W S W I R Q P P G K G L E W I G Y I Y Y S G S T N Y N P S L K S R V T I S V D T S K N Q F S L K L S S V T A A D T A V Y Y C A R T Q Q G K R I Y G V V S F G D Y Y Y Y Y Y M D V W G K G T T 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 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 95C 96 97 98 99 100 101 102 103 104 105 106 107
S Y V 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 S K 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 P W V F G G G T K L T V L

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen speciesSYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GGSISSY
CDRH2YYSGS
CDRH3TQQGKRIYGVVSFGDYYYYYYMDV
CDRL1GGNNIGSKSVH
CDRL2DDSDRPS
CDRL3QVWDSSSDHPWV

Orientation Angles (from ABangle)
HL-57.36°
HC171.36°
HC2119.73°
LC1123.38°
LC286.83°
dc16.3Å
>   D/C
Fv Details
Heavy chainD
Light chainC
Heavy subgroupIGHV4
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 52A 52B 53 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 100L 100M 100N 100O 100P 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G P G L V K P S E T L S L T C T V S G G S I S S Y Y W S W I R Q P P G K G L E W I G Y I Y Y S G S T N Y N P S L K S R V T I S V D T S K N Q F S L K L S S V T A A D T A V Y Y C A R T Q Q G K R I Y G V V S F G D Y Y Y Y Y Y M D V W G K G T T 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 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 95C 96 97 98 99 100 101 102 103 104 105 106 107
S Y V 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 S K 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 P W V F G G G T K L T V L

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen speciesSYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GGSISSY
CDRH2YYSGS
CDRH3TQQGKRIYGVVSFGDYYYYYYMDV
CDRL1GGNNIGSKSVH
CDRL2DDSDRPS
CDRL3QVWDSSSDHPWV

Orientation Angles (from ABangle)
HL-55.64°
HC171.18°
HC2120.2°
LC1124.05°
LC287.47°
dc16.33Å
>   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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