Structure Viewer: 5udc

>   Structure details

Crystal Structure of Rsv F a2 Bound to Medi8897

PDB5udc
SpeciesHOMO SAPIENS
MethodX-RAY DIFFRACTION
Resolution3.45Å
Number of Fvs3
In complexTrue
Light chain typeKappa
Has constant regionTrue
AffinityNA
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>   Fv information

This PDB has 3 Fv(s).

>   B/C
Fv Details
Heavy chainB
Light chainC
Heavy subgroupIGHV1
Light subgroupIGKV1
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 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 M V S C Q A S G G L L E D Y I I N W V R Q A P G Q G P E W M G G I I P V L G T V H Y G P K F Q G R V T I T A D E S T D T A Y M E L S S L R S E D T A M Y Y C A T E T A L V V S E T Y L P H Y F D N W G Q G T L 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
D I Q M T Q S P S S L S A A V G D R V T I T C Q A S Q D I V N Y L N W Y Q Q K P G K A P K L L I Y V A S N L E T G V P S R F S G S G S G T D F S L T I S S L Q P E D V A T Y Y C Q Q Y D N L P L T F G G G T K V E I K

Antigen Details
Antigen chainsA
Antigen typeprotein
Antigen namefusion glycoprotein f0
Antigen speciesHUMAN RESPIRATORY SYNCYTIAL VIRUS A (STRAINA2)
Antigen sequenceMELLILKANAITTILTAVTFCFASGQNITEEFYQSTCSAVSKGYLSALRTGWYTSVITIELSNIKENKCNGTDAKVKLIKQELDKYKNAVTELQLLMQSTPATNNRARRELPRFMNYTLNNAKKTNVTLSKKRKRRFLGFLLGVGSAIASGVAVCKVLHLEGEVNKIKSALLSTNKAVVSLSNGVSVLTFKVLDLKNYIDKQLLPILNKQSCSISNIETVIEFQQKNNRLLEITREFSVNAGVTTPVSTYMLTNSELLSLINDMPITNDQKKLMSNNVQIVRQQSYSIMCIIKEEVLAYVVQLPLYGVIDTPCWKLHTSPLCTTNTKEGSNICLTRTDRGWYCDNAGSVSFFPQAETCKVQSNRVFCDTMNSLTLPSEVNLCNVDIFNPKYDCKIMTSKTDVSSSVITSLGAIVSCYGKTKCTASNKNRGIIKTFSNGCDYVSNKGVDTVSVGNTLYYVNKQEGKSLYVKGEPIINFYDPLVFPSDEFDASISQVNEKINQSLAFIRKSDELLSAIGGYIPEAPRDGQAYVRKDGEWVLLSTFLGGLVPRGSHHHHHHSAWSHPQFEK

CDR Sequences (chothia definition)
CDRH1GGLLEDY
CDRH2IPVLGT
CDRH3ETALVVSETYLPHYFDN
CDRL1QASQDIVNYLN
CDRL2VASNLET
CDRL3QQYDNLPLT

Orientation Angles (from ABangle)
HL-59.83°
HC172.86°
HC2118.91°
LC1120.14°
LC284.9°
dc16.19Å
>   H/L
Fv Details
Heavy chainH
Light chainL
Heavy subgroupIGHV1
Light subgroupIGKV1
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 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 M V S C Q A S G G L L E D Y I I N W V R Q A P G Q G P E W M G G I I P V L G T V H Y G P K F Q G R V T I T A D E S T D T A Y M E L S S L R S E D T A M Y Y C A T E T A L V V S E T Y L P H Y F D N W G Q G T L 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
D I Q M T Q S P S S L S A A V G D R V T I T C Q A S Q D I V N Y L N W Y Q Q K P G K A P K L L I Y V A S N L E T G V P S R F S G S G S G T D F S L T I S S L Q P E D V A T Y Y C Q Q Y D N L P L T F G G G T K V E I K

Antigen Details
Antigen chainsF
Antigen typeprotein
Antigen namefusion glycoprotein f0
Antigen speciesHUMAN RESPIRATORY SYNCYTIAL VIRUS A (STRAINA2)
Antigen sequenceMELLILKANAITTILTAVTFCFASGQNITEEFYQSTCSAVSKGYLSALRTGWYTSVITIELSNIKENKCNGTDAKVKLIKQELDKYKNAVTELQLLMQSTPATNNRARRELPRFMNYTLNNAKKTNVTLSKKRKRRFLGFLLGVGSAIASGVAVCKVLHLEGEVNKIKSALLSTNKAVVSLSNGVSVLTFKVLDLKNYIDKQLLPILNKQSCSISNIETVIEFQQKNNRLLEITREFSVNAGVTTPVSTYMLTNSELLSLINDMPITNDQKKLMSNNVQIVRQQSYSIMCIIKEEVLAYVVQLPLYGVIDTPCWKLHTSPLCTTNTKEGSNICLTRTDRGWYCDNAGSVSFFPQAETCKVQSNRVFCDTMNSLTLPSEVNLCNVDIFNPKYDCKIMTSKTDVSSSVITSLGAIVSCYGKTKCTASNKNRGIIKTFSNGCDYVSNKGVDTVSVGNTLYYVNKQEGKSLYVKGEPIINFYDPLVFPSDEFDASISQVNEKINQSLAFIRKSDELLSAIGGYIPEAPRDGQAYVRKDGEWVLLSTFLGGLVPRGSHHHHHHSAWSHPQFEK

CDR Sequences (chothia definition)
CDRH1GGLLEDY
CDRH2IPVLGT
CDRH3ETALVVSETYLPHYFDN
CDRL1QASQDIVNYLN
CDRL2VASNLET
CDRL3QQYDNLPLT

Orientation Angles (from ABangle)
HL-58.06°
HC173.04°
HC2120.0°
LC1120.93°
LC285.09°
dc16.3Å
>   E/G
Fv Details
Heavy chainE
Light chainG
Heavy subgroupIGHV1
Light subgroupIGKV1
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 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 M V S C Q A S G G L L E D Y I I N W V R Q A P G Q G P E W M G G I I P V L G T V H Y G P K F Q G R V T I T A D E S T D T A Y M E L S S L R S E D T A M Y Y C A T E T A L V V S E T Y L P H Y F D N W G Q G T L 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
D I Q M T Q S P S S L S A A V G D R V T I T C Q A S Q D I V N Y L N W Y Q Q K P G K A P K L L I Y V A S N L E T G V P S R F S G S G S G T D F S L T I S S L Q P E D V A T Y Y C Q Q Y D N L P L T F G G G T K V E I K

Antigen Details
Antigen chainsD
Antigen typeprotein
Antigen namefusion glycoprotein f0
Antigen speciesHUMAN RESPIRATORY SYNCYTIAL VIRUS A (STRAINA2)
Antigen sequenceMELLILKANAITTILTAVTFCFASGQNITEEFYQSTCSAVSKGYLSALRTGWYTSVITIELSNIKENKCNGTDAKVKLIKQELDKYKNAVTELQLLMQSTPATNNRARRELPRFMNYTLNNAKKTNVTLSKKRKRRFLGFLLGVGSAIASGVAVCKVLHLEGEVNKIKSALLSTNKAVVSLSNGVSVLTFKVLDLKNYIDKQLLPILNKQSCSISNIETVIEFQQKNNRLLEITREFSVNAGVTTPVSTYMLTNSELLSLINDMPITNDQKKLMSNNVQIVRQQSYSIMCIIKEEVLAYVVQLPLYGVIDTPCWKLHTSPLCTTNTKEGSNICLTRTDRGWYCDNAGSVSFFPQAETCKVQSNRVFCDTMNSLTLPSEVNLCNVDIFNPKYDCKIMTSKTDVSSSVITSLGAIVSCYGKTKCTASNKNRGIIKTFSNGCDYVSNKGVDTVSVGNTLYYVNKQEGKSLYVKGEPIINFYDPLVFPSDEFDASISQVNEKINQSLAFIRKSDELLSAIGGYIPEAPRDGQAYVRKDGEWVLLSTFLGGLVPRGSHHHHHHSAWSHPQFEK

CDR Sequences (chothia definition)
CDRH1GGLLEDY
CDRH2IPVLGT
CDRH3ETALVVSETYLPHYFDN
CDRL1QASQDIVNYLN
CDRL2VASNLET
CDRL3QQYDNLPLT

Orientation Angles (from ABangle)
HL-59.35°
HC173.82°
HC2120.66°
LC1120.25°
LC285.01°
dc16.03Å
>   Occurences in auxilliary databases

Occurences of this structure in other OPIG databases.

TheraSAbDab link
CoVAbDab N/A
>   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

SAbDab papers

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]

Dunbar, J., Krawczyk, K. et al. (2014) SAbDab: the Structural Antibody Database. Nucleic Acids Res. 42(D1):D1140-D1146 [link]

Thera-SAbDab paper

Raybould, M.I.J., Marks, C. et al (2020) Thera-SAbDab: the Therapeutic Structural Antibody Database. Nucleic Acids Res. 48(D1):D383-D388. [link]

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