Structure Viewer: 8t5c

>   Structure details

Lassa Gpc Trimer in complex with Fab 8.11G and Nanobody D5

PDB8t5c
SpeciesHOMO SAPIENS; CAMELUS BACTRIANUS
MethodELECTRON MICROSCOPY
Resolution4.7Å
Number of Fvs3
In complexTrue
Light chain typeunknown,Kappa
Has constant regionFalse
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>   Fv information

This PDB has 3 Fv(s).

>   H/L
Fv Details
Heavy chainH
Light chainL
Heavy subgroupIGHV4
Light subgroupIGKV3
SpeciesHOMO SAPIENS
In complex?True
scFv?False
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 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 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
Q V Q L Q E S G P G L V K P S E T L S L T C S I S G V S T R N Y Y W S W I R Q S P G K G L E W I G Y I F N I G T T N Y N P S L K S R L T I S V D T S K N Q F S L K I T S V T A A D T A V Y Y C A S G F E Y G D Y T F D Y W G Q G T P 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 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
E I V L T Q S P A T L S V S P G G R A S L S C R A S Q S I G D K L S W Y Q Q K P G Q A P R L V I Y G A Y T R A T D I S P R F S G S R S G T D F N L T I S R M Q S G D F A V Y F C Q Q Y E N W P R T F G Q G T K L E I K

Antigen Details
Antigen chainsa
Antigen typeprotein
Antigen nameunknown
Antigen speciesLASSA VIRUS JOSIAH
Antigen sequenceGTFTWTLSDSEGKDTPGGYCLTRWMLIEAELKCFGNTAVAKCNEKHDEEFCDMLRLFDFNKQAIQRCKAPAQMSIQLINKAVNALINDQLIMKNHLRDIMGIPYCNYSKYWYLNHTTTGRTSLPKCWLVSNGSYLNETHFSDDIEQQADNMITEMLQKEGGGYIPEAPRDGQAYVRKDGEWVLLSTFLGGLVPR

CDR Sequences (chothia definition)
CDRH1GVSTRNY
CDRH2FNIGT
CDRH3GFEYGDYTFDY
CDRL1RASQSIGDKLS
CDRL2GAYTRAT
CDRL3QQYENWPRT

Orientation Angles (from ABangle)
HL-62.32°
HC175.88°
HC2119.52°
LC1120.67°
LC283.25°
dc16.47Å
>   E/I
Fv Details
Heavy chainE
Light chainI
Heavy subgroupIGHV4
Light subgroupIGKV3
SpeciesHOMO SAPIENS
In complex?True
scFv?False
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 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 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
Q V Q L Q E S G P G L V K P S E T L S L T C S I S G V S T R N Y Y W S W I R Q S P G K G L E W I G Y I F N I G T T N Y N P S L K S R L T I S V D T S K N Q F S L K I T S V T A A D T A V Y Y C A S G F E Y G D Y T F D Y W G Q G T P 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 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
E I V L T Q S P A T L S V S P G G R A S L S C R A S Q S I G D K L S W Y Q Q K P G Q A P R L V I Y G A Y T R A T D I S P R F S G S R S G T D F N L T I S R M Q S G D F A V Y F C Q Q Y E N W P R T F G Q G T K L E I K

Antigen Details
Antigen chainsb
Antigen typeprotein
Antigen nameunknown
Antigen speciesLASSA VIRUS JOSIAH
Antigen sequenceGTFTWTLSDSEGKDTPGGYCLTRWMLIEAELKCFGNTAVAKCNEKHDEEFCDMLRLFDFNKQAIQRCKAPAQMSIQLINKAVNALINDQLIMKNHLRDIMGIPYCNYSKYWYLNHTTTGRTSLPKCWLVSNGSYLNETHFSDDIEQQADNMITEMLQKEGGGYIPEAPRDGQAYVRKDGEWVLLSTFLGGLVPR

CDR Sequences (chothia definition)
CDRH1GVSTRNY
CDRH2FNIGT
CDRH3GFEYGDYTFDY
CDRL1RASQSIGDKLS
CDRL2GAYTRAT
CDRL3QQYENWPRT

Orientation Angles (from ABangle)
HL-63.69°
HC176.08°
HC2118.95°
LC1119.47°
LC282.77°
dc16.25Å
>   D/-
Fv Details
Heavy chainD
Light chain
Heavy subgroupunknown
Light subgroupunknown
SpeciesCAMELUS BACTRIANUS
In complex?True
scFv?False
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 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 98 101 102 103 104 105 106 107 108 109 110 111 112 113
A W Q L V E S G G G S V Q P G G S L T L T C Q A S K S T F S T S G M R W E R Q A Q G K G V E F V A D I S S D S T R K W Y S D S V K G R F T I S R S N W W R T V T L Q M N D L K P E D T A R Y Y C K D L E S H H L R G Q G T Q V T V S S

Antigen Details
Antigen chainsA,C,B
Antigen typeprotein
Antigen nameglycoprotein g2
Antigen speciesLASSA VIRUS JOSIAH
Antigen sequenceTSLYKGVYELQTLELNMETLNMTMPLSCTKNNSHHYIMVGNETGLELTLTNTSIINHKFCNLSDAHKKNLYDHALMSIISTFHLSIPNFNQYEAMSCDFNGGKISVQYNLSHSYAGDAANHCGTVANGVLQTFMRMAWGGSYIALDSGGCGNWDCIMTSYQYLIIQNTTWEDHCQFSRPSPIGYLGLLSQRTRDIYISRRRR/TSLYKGVYELQTLELNMETLNMTMPLSCTKNNSHHYIMVGNETGLELTLTNTSIINHKFCNLSDAHKKNLYDHALMSIISTFHLSIPNFNQYEAMSCDFNGGKISVQYNLSHSYAGDAANHCGTVANGVLQTFMRMAWGGSYIALDSGGCGNWDCIMTSYQYLIIQNTTWEDHCQFSRPSPIGYLGLLSQRTRDIYISRRRR/TSLYKGVYELQTLELNMETLNMTMPLSCTKNNSHHYIMVGNETGLELTLTNTSIINHKFCNLSDAHKKNLYDHALMSIISTFHLSIPNFNQYEAMSCDFNGGKISVQYNLSHSYAGDAANHCGTVANGVLQTFMRMAWGGSYIALDSGGCGNWDCIMTSYQYLIIQNTTWEDHCQFSRPSPIGYLGLLSQRTRDIYISRRRR

CDR Sequences (chothia definition)
CDRH1KSTFSTS
CDRH2SSDSTR
CDRH3LESHHL

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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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