Structure Viewer: 4yga

>   Structure details

Cdpk1, From toxoplasma Gondii, Bound to inhibitory Vhh-1B7

PDB4yga
SpeciesVICUGNA PACOS
MethodX-RAY DIFFRACTION
Resolution2.94Å
Number of Fvs4
In complexTrue
Light chain type
Has constant regionFalse
>   Structure visualisation
Please note the WebGL plugin needs to be enabled to use PV Viewer.

Display options:














>   Fv information

This PDB has 4 Fv(s).

>   B/-
Fv Details
Heavy chainB
Light chain
Heavy subgroupIGHV1
Light subgroup
SpeciesVICUGNA PACOS
In complex?True
scFv?False
Has constant domain?False

Numbered Sequences (chothia)

Heavy chain

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 101 102 103 104 105 106 107 108 109 110 111 112 113
V Q L V E T G G G L V Q P G E S L R L S C V A S G F T L D H S A V G W F R Q V P G K E R E K L L C I N A N G V S L D Y A D S I K G R F T I S R D N A K N T V Y L Q M N D L K P E D T A T Y S C A A T R E F C S A Y V F L Y E H W G Q G T Q V T V S S

Antigen Details
Antigen chainsA
Antigen typeprotein
Antigen namecalmodulin-domain protein kinase 1
Antigen speciesTOXOPLASMA GONDII
Antigen sequenceMMGQQESTLGGAAGEPRSRGHAAGTSGGPGDHLHATPGMFVQHSTAIFSDRYKGQRVLGKGSFGEVILCKDKITGQECAVKVISKRQVKQKTDKESLLREVQLLKQLDHPNIMKLYEFFEDKGYFYLVGEVYTGGELFDEIISRKRFSEVDAARIIRQVLSGITYMHKNKIVHRDLKPENLLLESKSKDANIRIIDFGLSTHFEASKKMKDKIGTAYYIAPEVLHGTYDEKCDVWSTGVILYILLSGCPPFNGANEYDILKKVEKGKYTFELPQWKKVSESAKDLIRKMLTYVPSMRISARDALDHEWIQTYTKEQISVDVPSLDNAILNIRQFQGTQKLAQAALLYMGSKLTSQDETKELTAIFHKMDKNGDGQLDRAELIEGYKELMRMKGQDASMLDASAVEHEVDQVLDAVDFDKNGYIEYSEFVTVAMDRKTLLSRERLERAFRMFDSDNSGKISSTELATIFGVSDVDSETWKSVLSEVDKNNDGEVDFDEFQQMLLKLCGNLEHHHHHH

CDR Sequences (chothia definition)
CDRH1GFTLDHS
CDRH2NANGVS
CDRH3TREFCSAYVFLYEH

>   H/-
Fv Details
Heavy chainH
Light chain
Heavy subgroupIGHV1
Light subgroup
SpeciesVICUGNA PACOS
In complex?True
scFv?False
Has constant domain?False

Numbered Sequences (chothia)

Heavy chain

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 101 102 103 104 105 106 107 108 109 110 111 112 113
V Q L V E T G G G L V Q P G E S L R L S C V A S G F T L D H S A V G W F R Q V P G K E R E K L L C I N A N G V S L D Y A D S I K G R F T I S R D N A K N T V Y L Q M N D L K P E D T A T Y S C A A T R E F C S A Y V F L Y E H W G Q G T Q V T V S S

Antigen Details
Antigen chainsG
Antigen typeprotein
Antigen namecalmodulin-domain protein kinase 1
Antigen speciesTOXOPLASMA GONDII
Antigen sequenceMMGQQESTLGGAAGEPRSRGHAAGTSGGPGDHLHATPGMFVQHSTAIFSDRYKGQRVLGKGSFGEVILCKDKITGQECAVKVISKRQVKQKTDKESLLREVQLLKQLDHPNIMKLYEFFEDKGYFYLVGEVYTGGELFDEIISRKRFSEVDAARIIRQVLSGITYMHKNKIVHRDLKPENLLLESKSKDANIRIIDFGLSTHFEASKKMKDKIGTAYYIAPEVLHGTYDEKCDVWSTGVILYILLSGCPPFNGANEYDILKKVEKGKYTFELPQWKKVSESAKDLIRKMLTYVPSMRISARDALDHEWIQTYTKEQISVDVPSLDNAILNIRQFQGTQKLAQAALLYMGSKLTSQDETKELTAIFHKMDKNGDGQLDRAELIEGYKELMRMKGQDASMLDASAVEHEVDQVLDAVDFDKNGYIEYSEFVTVAMDRKTLLSRERLERAFRMFDSDNSGKISSTELATIFGVSDVDSETWKSVLSEVDKNNDGEVDFDEFQQMLLKLCGNLEHHHHHH

CDR Sequences (chothia definition)
CDRH1GFTLDHS
CDRH2NANGVS
CDRH3TREFCSAYVFLYEH

>   F/-
Fv Details
Heavy chainF
Light chain
Heavy subgroupIGHV1
Light subgroup
SpeciesVICUGNA PACOS
In complex?True
scFv?False
Has constant domain?False

Numbered Sequences (chothia)

Heavy chain

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 101 102 103 104 105 106 107 108 109 110 111 112 113
V Q L V E T G G G L V Q P G E S L R L S C V A S G F T L D H S A V G W F R Q V P G K E R E K L L C I N A N G V S L D Y A D S I K G R F T I S R D N A K N T V Y L Q M N D L K P E D T A T Y S C A A T R E F C S A Y V F L Y E H W G Q G T Q V T V S S

Antigen Details
Antigen chainsE
Antigen typeprotein
Antigen namecalmodulin-domain protein kinase 1
Antigen speciesTOXOPLASMA GONDII
Antigen sequenceMMGQQESTLGGAAGEPRSRGHAAGTSGGPGDHLHATPGMFVQHSTAIFSDRYKGQRVLGKGSFGEVILCKDKITGQECAVKVISKRQVKQKTDKESLLREVQLLKQLDHPNIMKLYEFFEDKGYFYLVGEVYTGGELFDEIISRKRFSEVDAARIIRQVLSGITYMHKNKIVHRDLKPENLLLESKSKDANIRIIDFGLSTHFEASKKMKDKIGTAYYIAPEVLHGTYDEKCDVWSTGVILYILLSGCPPFNGANEYDILKKVEKGKYTFELPQWKKVSESAKDLIRKMLTYVPSMRISARDALDHEWIQTYTKEQISVDVPSLDNAILNIRQFQGTQKLAQAALLYMGSKLTSQDETKELTAIFHKMDKNGDGQLDRAELIEGYKELMRMKGQDASMLDASAVEHEVDQVLDAVDFDKNGYIEYSEFVTVAMDRKTLLSRERLERAFRMFDSDNSGKISSTELATIFGVSDVDSETWKSVLSEVDKNNDGEVDFDEFQQMLLKLCGNLEHHHHHH

CDR Sequences (chothia definition)
CDRH1GFTLDHS
CDRH2NANGVS
CDRH3TREFCSAYVFLYEH

>   D/-
Fv Details
Heavy chainD
Light chain
Heavy subgroupIGHV1
Light subgroup
SpeciesVICUGNA PACOS
In complex?True
scFv?False
Has constant domain?False

Numbered Sequences (chothia)

Heavy chain

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 101 102 103 104 105 106 107 108 109 110 111 112 113
V Q L V E T G G G L V Q P G E S L R L S C V A S G F T L D H S A V G W F R Q V P G K E R E K L L C I N A N G V S L D Y A D S I K G R F T I S R D N A K N T V Y L Q M N D L K P E D T A T Y S C A A T R E F C S A Y V F L Y E H W G Q G T Q V T V S S

Antigen Details
Antigen chainsC
Antigen typeprotein
Antigen namecalmodulin-domain protein kinase 1
Antigen speciesTOXOPLASMA GONDII
Antigen sequenceMMGQQESTLGGAAGEPRSRGHAAGTSGGPGDHLHATPGMFVQHSTAIFSDRYKGQRVLGKGSFGEVILCKDKITGQECAVKVISKRQVKQKTDKESLLREVQLLKQLDHPNIMKLYEFFEDKGYFYLVGEVYTGGELFDEIISRKRFSEVDAARIIRQVLSGITYMHKNKIVHRDLKPENLLLESKSKDANIRIIDFGLSTHFEASKKMKDKIGTAYYIAPEVLHGTYDEKCDVWSTGVILYILLSGCPPFNGANEYDILKKVEKGKYTFELPQWKKVSESAKDLIRKMLTYVPSMRISARDALDHEWIQTYTKEQISVDVPSLDNAILNIRQFQGTQKLAQAALLYMGSKLTSQDETKELTAIFHKMDKNGDGQLDRAELIEGYKELMRMKGQDASMLDASAVEHEVDQVLDAVDFDKNGYIEYSEFVTVAMDRKTLLSRERLERAFRMFDSDNSGKISSTELATIFGVSDVDSETWKSVLSEVDKNNDGEVDFDEFQQMLLKLCGNLEHHHHHH

CDR Sequences (chothia definition)
CDRH1GFTLDHS
CDRH2NANGVS
CDRH3TREFCSAYVFLYEH

>   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]

Our privacy policy