Structure Viewer: 6ssi

>   Structure details

Structure of the Pentameric Ligand-Gated Ion Channel Elic in complex with a Pam Nanobody

PDB6ssi
SpeciesLAMA GLAMA
MethodX-RAY DIFFRACTION
Resolution2.59Å
Number of Fvs5
In complexTrue
Light chain type
Has constant regionFalse
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>   Fv information

This PDB has 5 Fv(s).

>   H/-
Fv Details
Heavy chainH
Light chain
Heavy subgroupIGHV1
Light subgroup
SpeciesLAMA GLAMA
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 95 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G G G L A Q A G G S M R L S C I A S G R N F F I N I M N W Y R Q A P G K Q R E L V A Q I T R A G T T T Y A D S V K G R F T I S R D N A K N T V Y L Q M S T L Q S E D T A V Y Y C N V G A S W G Q G T Q V T V S S

Antigen Details
Antigen chainsC
Antigen typeprotein
Antigen namecys-loop ligand-gated ion channel
Antigen speciesDICKEYA CHRYSANTHEMI
Antigen sequenceGPVDARPVDVSVSIFINKIYGVNTLEQTYKVDGYIVAQWTGKPRKTPGDKPLIVENTQIERWINNGLWVPALEFINVVGSPDTGNKRLMLFPDGRVIYNARFLGSFSNDMDFRLFPFDRQQFVLELEPFSYNNQQLRFSDIQVYTENIDNEEIDEWWIRGKASTHISDIRYDHLSSVQPNQNEFSRITVRIDAVRNPSYYLWSFILPLGLIIAASWSVFWLESFSERLQTSFTLMLTVVAYAFYTSNILPRLPYTTVIDQMIIAGYGSIFAAILLIIFAHHRQANGVEDDLLIQRCRLAFPLGFLAIGCVLVIRGITG

CDR Sequences (chothia definition)
CDRH1GRNFFIN
CDRH2TRAGT
CDRH3GAS

>   J/-
Fv Details
Heavy chainJ
Light chain
Heavy subgroupIGHV1
Light subgroup
SpeciesLAMA GLAMA
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 95 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G G G L A Q A G G S M R L S C I A S G R N F F I N I M N W Y R Q A P G K Q R E L V A Q I T R A G T T T Y A D S V K G R F T I S R D N A K N T V Y L Q M S T L Q S E D T A V Y Y C N V G A S W G Q G T Q V T V S S

Antigen Details
Antigen chainsE
Antigen typeprotein
Antigen namecys-loop ligand-gated ion channel
Antigen speciesDICKEYA CHRYSANTHEMI
Antigen sequenceGPVDARPVDVSVSIFINKIYGVNTLEQTYKVDGYIVAQWTGKPRKTPGDKPLIVENTQIERWINNGLWVPALEFINVVGSPDTGNKRLMLFPDGRVIYNARFLGSFSNDMDFRLFPFDRQQFVLELEPFSYNNQQLRFSDIQVYTENIDNEEIDEWWIRGKASTHISDIRYDHLSSVQPNQNEFSRITVRIDAVRNPSYYLWSFILPLGLIIAASWSVFWLESFSERLQTSFTLMLTVVAYAFYTSNILPRLPYTTVIDQMIIAGYGSIFAAILLIIFAHHRQANGVEDDLLIQRCRLAFPLGFLAIGCVLVIRGITG

CDR Sequences (chothia definition)
CDRH1GRNFFIN
CDRH2TRAGT
CDRH3GAS

>   I/-
Fv Details
Heavy chainI
Light chain
Heavy subgroupIGHV1
Light subgroup
SpeciesLAMA GLAMA
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 95 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G G G L A Q A G G S M R L S C I A S G R N F F I N I M N W Y R Q A P G K Q R E L V A Q I T R A G T T T Y A D S V K G R F T I S R D N A K N T V Y L Q M S T L Q S E D T A V Y Y C N V G A S W G Q G T Q V T V S S

Antigen Details
Antigen chainsD
Antigen typeprotein
Antigen namecys-loop ligand-gated ion channel
Antigen speciesDICKEYA CHRYSANTHEMI
Antigen sequenceGPVDARPVDVSVSIFINKIYGVNTLEQTYKVDGYIVAQWTGKPRKTPGDKPLIVENTQIERWINNGLWVPALEFINVVGSPDTGNKRLMLFPDGRVIYNARFLGSFSNDMDFRLFPFDRQQFVLELEPFSYNNQQLRFSDIQVYTENIDNEEIDEWWIRGKASTHISDIRYDHLSSVQPNQNEFSRITVRIDAVRNPSYYLWSFILPLGLIIAASWSVFWLESFSERLQTSFTLMLTVVAYAFYTSNILPRLPYTTVIDQMIIAGYGSIFAAILLIIFAHHRQANGVEDDLLIQRCRLAFPLGFLAIGCVLVIRGITG

CDR Sequences (chothia definition)
CDRH1GRNFFIN
CDRH2TRAGT
CDRH3GAS

>   F/-
Fv Details
Heavy chainF
Light chain
Heavy subgroupIGHV1
Light subgroup
SpeciesLAMA GLAMA
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 95 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G G G L A Q A G G S M R L S C I A S G R N F F I N I M N W Y R Q A P G K Q R E L V A Q I T R A G T T T Y A D S V K G R F T I S R D N A K N T V Y L Q M S T L Q S E D T A V Y Y C N V G A S W G Q G T Q V T V S S

Antigen Details
Antigen chainsA
Antigen typeprotein
Antigen namecys-loop ligand-gated ion channel
Antigen speciesDICKEYA CHRYSANTHEMI
Antigen sequenceGPVDARPVDVSVSIFINKIYGVNTLEQTYKVDGYIVAQWTGKPRKTPGDKPLIVENTQIERWINNGLWVPALEFINVVGSPDTGNKRLMLFPDGRVIYNARFLGSFSNDMDFRLFPFDRQQFVLELEPFSYNNQQLRFSDIQVYTENIDNEEIDEWWIRGKASTHISDIRYDHLSSVQPNQNEFSRITVRIDAVRNPSYYLWSFILPLGLIIAASWSVFWLESFSERLQTSFTLMLTVVAYAFYTSNILPRLPYTTVIDQMIIAGYGSIFAAILLIIFAHHRQANGVEDDLLIQRCRLAFPLGFLAIGCVLVIRGITG

CDR Sequences (chothia definition)
CDRH1GRNFFIN
CDRH2TRAGT
CDRH3GAS

>   G/-
Fv Details
Heavy chainG
Light chain
Heavy subgroupIGHV1
Light subgroup
SpeciesLAMA GLAMA
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 95 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G G G L A Q A G G S M R L S C I A S G R N F F I N I M N W Y R Q A P G K Q R E L V A Q I T R A G T T T Y A D S V K G R F T I S R D N A K N T V Y L Q M S T L Q S E D T A V Y Y C N V G A S W G Q G T Q V T V S S

Antigen Details
Antigen chainsB
Antigen typeprotein
Antigen namecys-loop ligand-gated ion channel
Antigen speciesDICKEYA CHRYSANTHEMI
Antigen sequenceGPVDARPVDVSVSIFINKIYGVNTLEQTYKVDGYIVAQWTGKPRKTPGDKPLIVENTQIERWINNGLWVPALEFINVVGSPDTGNKRLMLFPDGRVIYNARFLGSFSNDMDFRLFPFDRQQFVLELEPFSYNNQQLRFSDIQVYTENIDNEEIDEWWIRGKASTHISDIRYDHLSSVQPNQNEFSRITVRIDAVRNPSYYLWSFILPLGLIIAASWSVFWLESFSERLQTSFTLMLTVVAYAFYTSNILPRLPYTTVIDQMIIAGYGSIFAAILLIIFAHHRQANGVEDDLLIQRCRLAFPLGFLAIGCVLVIRGITG

CDR Sequences (chothia definition)
CDRH1GRNFFIN
CDRH2TRAGT
CDRH3GAS

>   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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