Structure Viewer: 7kej

>   Structure details

Bdbv-289 Bound to Ebov Gpdmuc Makona

PDB7kej
SpeciesHOMO SAPIENS
MethodELECTRON MICROSCOPY
Resolution3.8Å
Number of Fvs3
In complexTrue
Light chain typeLambda
Has constant regionTrue
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>   Fv information

This PDB has 3 Fv(s).

>   H/K
Fv Details
Heavy chainH
Light chainK
Heavy subgroupIGHV1
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 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 V Q S G A E V K K P G S S V K V S C K A S G A T F G S D T V T W V R Q A P G Q G L E W M G G I I P F F G E A N Y A Q R F Q G R V T I T A D K S T N T A Y M E L S S L R S E D T A V Y F C A R Q I N E M A T F G E I H Y Y T Y M D V W G Q G T L 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 96 97 98 99 100 101 102 103 104 105 106 107
G S E L T Q D P A V S V A L G Q T V R I T C Q G D S L R N Y Y A S W Y Q Q K P R Q A P V L V F Y G K N N R P S G I P D R F S G S S S G N T A S L T I S G A Q A E D E A D Y Y C N S R D S S S N H L V F G G G T K L T V L

Antigen Details
Antigen chainsB
Antigen typeprotein
Antigen namevirion spike glycoprotein
Antigen speciesEBOLA VIRUS
Antigen sequenceMDAMKRGLCCVLLLCGAVFVSPSQEIHARFRRGARSIPLGVIHNSTLQVSDVDKLVCRDKLSSTNQLRSVGLNLEGNGVATDVPSVTKRWGFRSGVPPKVVNYEAGEWAENCYNLEIKKPDGSECLPAAPDGIRGFPRCRYVHKVSGTGPCAGDFAFHKEGAFFLYDRLASTVIYRGTTFAEGVVAFLILPQAKKDFFSSHPLREPVNATEDPSSGYYSTTIRYQATGFGTNETEYLFEVDNLTYVQLESRFTPQFLLQLNETIYASGKRSNTTGKLIWKVNPEIDTTIGEWAFWETKKNLTRKIRSEELSFT

CDR Sequences (chothia definition)
CDRH1GATFGSD
CDRH2IPFFGE
CDRH3QINEMATFGEIHYYTYMDV
CDRL1QGDSLRNYYAS
CDRL2GKNNRPS
CDRL3NSRDSSSNHLV

Orientation Angles (from ABangle)
HL-52.71°
HC171.31°
HC2114.82°
LC1121.55°
LC281.86°
dc16.34Å
>   I/L
Fv Details
Heavy chainI
Light chainL
Heavy subgroupIGHV1
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 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 V Q S G A E V K K P G S S V K V S C K A S G A T F G S D T V T W V R Q A P G Q G L E W M G G I I P F F G E A N Y A Q R F Q G R V T I T A D K S T N T A Y M E L S S L R S E D T A V Y F C A R Q I N E M A T F G E I H Y Y T Y M D V W G Q G T L 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 96 97 98 99 100 101 102 103 104 105 106 107
G S E L T Q D P A V S V A L G Q T V R I T C Q G D S L R N Y Y A S W Y Q Q K P R Q A P V L V F Y G K N N R P S G I P D R F S G S S S G N T A S L T I S G A Q A E D E A D Y Y C N S R D S S S N H L V F G G G T K L T V L

Antigen Details
Antigen chainsC
Antigen typeprotein
Antigen namevirion spike glycoprotein
Antigen speciesEBOLA VIRUS
Antigen sequenceMDAMKRGLCCVLLLCGAVFVSPSQEIHARFRRGARSIPLGVIHNSTLQVSDVDKLVCRDKLSSTNQLRSVGLNLEGNGVATDVPSVTKRWGFRSGVPPKVVNYEAGEWAENCYNLEIKKPDGSECLPAAPDGIRGFPRCRYVHKVSGTGPCAGDFAFHKEGAFFLYDRLASTVIYRGTTFAEGVVAFLILPQAKKDFFSSHPLREPVNATEDPSSGYYSTTIRYQATGFGTNETEYLFEVDNLTYVQLESRFTPQFLLQLNETIYASGKRSNTTGKLIWKVNPEIDTTIGEWAFWETKKNLTRKIRSEELSFT

CDR Sequences (chothia definition)
CDRH1GATFGSD
CDRH2IPFFGE
CDRH3QINEMATFGEIHYYTYMDV
CDRL1QGDSLRNYYAS
CDRL2GKNNRPS
CDRL3NSRDSSSNHLV

Orientation Angles (from ABangle)
HL-52.7°
HC171.31°
HC2114.82°
LC1121.55°
LC281.86°
dc16.34Å
>   G/J
Fv Details
Heavy chainG
Light chainJ
Heavy subgroupIGHV1
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 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 V Q S G A E V K K P G S S V K V S C K A S G A T F G S D T V T W V R Q A P G Q G L E W M G G I I P F F G E A N Y A Q R F Q G R V T I T A D K S T N T A Y M E L S S L R S E D T A V Y F C A R Q I N E M A T F G E I H Y Y T Y M D V W G Q G T L 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 96 97 98 99 100 101 102 103 104 105 106 107
G S E L T Q D P A V S V A L G Q T V R I T C Q G D S L R N Y Y A S W Y Q Q K P R Q A P V L V F Y G K N N R P S G I P D R F S G S S S G N T A S L T I S G A Q A E D E A D Y Y C N S R D S S S N H L V F G G G T K L T V L

Antigen Details
Antigen chainsA
Antigen typeprotein
Antigen namevirion spike glycoprotein
Antigen speciesEBOLA VIRUS
Antigen sequenceMDAMKRGLCCVLLLCGAVFVSPSQEIHARFRRGARSIPLGVIHNSTLQVSDVDKLVCRDKLSSTNQLRSVGLNLEGNGVATDVPSVTKRWGFRSGVPPKVVNYEAGEWAENCYNLEIKKPDGSECLPAAPDGIRGFPRCRYVHKVSGTGPCAGDFAFHKEGAFFLYDRLASTVIYRGTTFAEGVVAFLILPQAKKDFFSSHPLREPVNATEDPSSGYYSTTIRYQATGFGTNETEYLFEVDNLTYVQLESRFTPQFLLQLNETIYASGKRSNTTGKLIWKVNPEIDTTIGEWAFWETKKNLTRKIRSEELSFT

CDR Sequences (chothia definition)
CDRH1GATFGSD
CDRH2IPFFGE
CDRH3QINEMATFGEIHYYTYMDV
CDRL1QGDSLRNYYAS
CDRL2GKNNRPS
CDRL3NSRDSSSNHLV

Orientation Angles (from ABangle)
HL-52.71°
HC171.31°
HC2114.82°
LC1121.55°
LC281.86°
dc16.34Å
>   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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