Structure Viewer: 7sx7

>   Structure details

Crystal Structure of Broadly Neutralizing antibody N49P9.3-Fr3-3 Fab in complex with Hiv-1 Clade a/E Strain 93Th057 Gp120 Core

PDB7sx7
SpeciesCHIMERIC HOMO/HOMO SAPIENS
MethodX-RAY DIFFRACTION
Resolution2.15Å
Number of Fvs2
In complexTrue
Light chain typeunknown
Has constant regionTrue
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>   Fv information

This PDB has 2 Fv(s).

>   H/L
Fv Details
Heavy chainH
Light chainL
Heavy subgroupunknown
Light subgroupunknown
SpeciesCHIMERIC HOMO/HOMO 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 76A 76B 76C 76D 76E 76F 76G 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
H V Q L V Q S G G G V K K I G A A V R I S C E V S G Y N F M D Q F I N W V R Q A P G Q G L E W M G W M N P I Y G Q V N Y S W R F Q G R V T M T R Q L S Q D P D D P D W G T A F M E L R G L R V D D T A V Y Y C A R G P S G E N Y P F H Y W G Q G V R V V V S S

Light chain

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 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 96 97 98 99 100 101 102 103 104 105 106 107
L T Q P A S M S A S P G Q S V T I S C S G T R H I I S A W F Q Q Y P G K P P K L I I F D D D K R P S G V P S R F S A S R P G D T A S L T I S N V Q P E D E A T Y I C N T Y E F F G G G T K L T V L

Antigen Details
Antigen chainsG
Antigen typeprotein
Antigen nameclade a/e 93th057 hiv-1 gp120 core
Antigen speciesHUMAN IMMUNODEFICIENCY VIRUS 1
Antigen sequenceVPVWKDADTTLFCASDAKAHETEVHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMQEDVISLWDQSLQPCVKLTGGSVIKQACPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSTQLLLNGSLAEEEIIIRSENLTNNAKTIIVHLNKSVEINCTRPSNGGSGSGGDIRKAYCEINGTKWNKVLKQVTEKLKEHFNNKTIIFQPPSGGDLEITMHSFNCRGEFFYCNTTQLFNNTCIGNETMKGCNGTITLPCKIKQIINMWQGTGQAMYAPPIDGKINCVSNITGILLTRDGGANNTSNETFRPGGGNIKDNWRSELYKYKVVQIE

CDR Sequences (chothia definition)
CDRH1GYNFMDQ
CDRH2NPIYGQ
CDRH3GPSGENYPFHY
CDRL1SGTRHIISA
CDRL2DDDKRPS
CDRL3NTYEF

Orientation Angles (from ABangle)
HL-54.83°
HC176.01°
HC2113.7°
LC1121.02°
LC281.65°
dc15.87Å
>   B/C
Fv Details
Heavy chainB
Light chainC
Heavy subgroupunknown
Light subgroupunknown
SpeciesCHIMERIC HOMO/HOMO 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 76A 76B 76C 76D 76E 76F 76G 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
H V Q L V Q S G G G V K K I G A A V R I S C E V S G Y N F M D Q F I N W V R Q A P G Q G L E W M G W M N P I Y G Q V N Y S W R F Q G R V T M T R Q L S Q D P D D P D W G T A F M E L R G L R V D D T A V Y Y C A R G P S G E N Y P F H Y W G Q G V R V V V S S

Light chain

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 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 96 97 98 99 100 101 102 103 104 105 106 107
L T Q P A S M S A S P G Q S V T I S C S G T R H I I S A W F Q Q Y P G K P P K L I I F D D D K R P S G V P S R F S A S R P G D T A S L T I S N V Q P E D E A T Y I C N T Y E F F G G G T K L T V L

Antigen Details
Antigen chainsA
Antigen typeprotein
Antigen nameclade a/e 93th057 hiv-1 gp120 core
Antigen speciesHUMAN IMMUNODEFICIENCY VIRUS 1
Antigen sequenceVPVWKDADTTLFCASDAKAHETEVHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMQEDVISLWDQSLQPCVKLTGGSVIKQACPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSTQLLLNGSLAEEEIIIRSENLTNNAKTIIVHLNKSVEINCTRPSNGGSGSGGDIRKAYCEINGTKWNKVLKQVTEKLKEHFNNKTIIFQPPSGGDLEITMHSFNCRGEFFYCNTTQLFNNTCIGNETMKGCNGTITLPCKIKQIINMWQGTGQAMYAPPIDGKINCVSNITGILLTRDGGANNTSNETFRPGGGNIKDNWRSELYKYKVVQIE

CDR Sequences (chothia definition)
CDRH1GYNFMDQ
CDRH2NPIYGQ
CDRH3GPSGENYPFHY
CDRL1SGTRHIISA
CDRL2DDDKRPS
CDRL3NTYEF

Orientation Angles (from ABangle)
HL-55.14°
HC175.91°
HC2113.43°
LC1121.0°
LC281.4°
dc15.87Å
>   Downloads

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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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