Structure Viewer: 6aj9

>   Structure details

the Structure of Enterovirus D68 Mature Virion in complex with Fab 15C5 and 11G1

PDB6aj9
SpeciesMUS MUSCULUS
MethodELECTRON MICROSCOPY
Resolution3.5Å
Number of Fvs2
In complexTrue
Light chain typeKappa
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 2 Fv(s).

>   D/E
Fv Details
Heavy chainD
Light chainE
Heavy subgroupIGHV1
Light subgroupIGKV8
SpeciesMUS MUSCULUS
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 99 100 100A 100B 100C 100D 100E 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q Q S G A E L V R P G V S V K I S C K G S G Y I F T D Y V M H W V K Q S H S K S L E W I G V I S T Y Y G D G S Y N Q K F K G K A T M T V D K S S S T A Y M E L A R L T S E D S A I Y Y C V R G E N Y Y G V S G T M D Y W G Q G T S 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 30A 30B 30C 30D 30E 30F 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
D I V M S Q S P S S L A V S V G E K V T M S C K S S Q S L L Y S N N Q K N Y L A W Y Q Q K P G Q S P Q L L I Y W A S T R E S G V P D R F T G S E S G T D F T L T I S S V K A E D L A V F Y C Q Q Y Y N Y P W T F G G G T K L E I K

Antigen Details
Antigen chainsA
Antigen typeprotein
Antigen namecapsid protein vp1
Antigen speciesENTEROVIRUS D68
Antigen sequenceIESIIKTATDTVKSEINAELGVVPSLNAVETGATSNTEPEEAIQTRTVINQHGVSETLVENFLSRAALVSKRSFEYKDHTSSAAQADKNFFKWTINTRSFVQLRRKLELFTYLRFDAEITILTTVAVNGSGNNTYVGLPDLTLQAMFVPTGALTPEKQDSFHWQSGSNASVFFKISDPPARITIPFMCINSAYSVFYDGFAGFEKNGLYGINPADTIGNLCVRIVNEHQPVGFTVTVRVYMKPKHIKAWAPRPPRTLPYMSIANANYKGKERAPNALNAIIGNRDSVKTMPHNIV

CDR Sequences (chothia definition)
CDRH1GYIFTDY
CDRH2STYYGD
CDRH3GENYYGVSGTMDY
CDRL1KSSQSLLYSNNQKNYLA
CDRL2WASTRES
CDRL3QQYYNYPWT

Orientation Angles (from ABangle)
HL-55.87°
HC173.93°
HC2112.32°
LC1119.83°
LC283.01°
dc16.78Å
>   H/L
Fv Details
Heavy chainH
Light chainL
Heavy subgroupIGHV1
Light subgroupIGKV9
SpeciesMUS MUSCULUS
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 99 100 100A 100B 100C 101 102 103 104 105 106 107 108 109
Q V Q L Q Q S G T E L A K P G A S V K M S C K A S G Y T F T N Y W M H W F K Q R P G Q G L E W I G Y V N P N T D Y T D Y N H K F K D K A T L T A D K S S S T A Y M Q L S S L T S E D S A V Y F C A R G T F G N Y A S F A Y W G Q G T L V

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
D I Q M I Q S P S S M F A S L G D R V S L S C R A S Q D I R G N L D W Y Q Q K P G G T I K L L I Y S T S N L N S G V P S R F S G S G S G S D Y S L T I S S L E S E D F A D Y Y C L Q R N A Y P L T F G G G T K L E I K

Antigen Details
Antigen chainsC,B
Antigen typeprotein
Antigen namecapsid protein vp3; capsid protein vp2
Antigen speciesENTEROVIRUS D68
Antigen sequenceGVPTYLLPGSGQFLTTDDHSSAPALPCFNPTPEMHIPGQVRNMLEVVQVESMMEINNTESAVGMERLKVDISALTDVDQLLFNIPLDIQLDGPLRNTLVGNISRYYTHWSGSLEMTFMFCGSFMATGKLILCYTPPGGSCPTTRETAMLGTHIVWDFGLQSSVTLIIPWISGSHYRMFNNDAKSTNANVGYVTCFMQTNLIVPSESSDTCSLIGFIAAKDDFSLRLMRDSPDIGQLDHLHAAEAAYQ/SPSAEACGYSDRVLQLKLGNSAIVTQEAANYCCAYGEWPNYLPDHEAVAIDKPTQPETATDRFYTLKSVKWETGSTGWWWKLPDALNNIGMFGQNVQHHYLYRSGFLIHVQCNATKFHQGALLVVAIPEHQRGAHNTNTSPGFDDIMKGEEGGTFNHPYVLDDGTSLACATIFPHQWINLRTNNSATIVLPWMNAAPMDFPLRHNQWTLAIIPVVPLGTRTTSSMVPITVSIAPMCCEFNGLRHAITQ

CDR Sequences (chothia definition)
CDRH1GYTFTNY
CDRH2NPNTDY
CDRH3GTFGNYASFAY
CDRL1RASQDIRGNLD
CDRL2STSNLNS
CDRL3LQRNAYPLT

Orientation Angles (from ABangle)
HL-60.66°
HC173.22°
HC2115.53°
LC1121.09°
LC279.96°
dc16.96Å
>   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