Structure Viewer: 2vyr

>   Structure details

Structure of Human Mdm4 N-Terminal Domain Bound to a Single Domain antibody

PDB2vyr
SpeciesHOMO SAPIENS
MethodX-RAY DIFFRACTION
Resolution2.0Å
Number of Fvs8
In complexTrue
Light chain type
Has constant regionFalse
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>   Fv information

This PDB has 8 Fv(s).

>   E/-
Fv Details
Heavy chainE
Light chain
Heavy subgroupIGHV3
Light subgroup
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 52A 52B 52C 53 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 101 102 103 104 105 106 107 108 109 110 111 112 113
E V Q L L E S G G G L V Q P G G S L R L S C A A S G F T F E E Y A M L W V R Q A P G K G L E W V S G I N A R G Y T T Y Y A D S V K G R F T I S R D N S K N T L Y L Q M N S L R T E D T A V Y Y C A K P W Y P F M A S K G S E F D Y W G Q G T L V T V S S

Antigen Details
Antigen chainsA
Antigen typeprotein
Antigen namemdm4 protein
Antigen speciesHOMO SAPIENS
Antigen sequenceACRISPGQINQVRPKLPLLKILHAAGAQGEMFTVKEVMHYLGQYIMVKQLYDQQEQHMVYCGGDLLGELLGRQSFSVKDPSPLYDMLRKNLVTLATATTDA

CDR Sequences (chothia definition)
CDRH1GFTFEEY
CDRH2NARGYT
CDRH3PWYPFMASKGSEFDY

>   G/-
Fv Details
Heavy chainG
Light chain
Heavy subgroupIGHV3
Light subgroup
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 52A 52B 52C 53 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 101 102 103 104 105 106 107 108 109 110 111 112 113
E V Q L L E S G G G L V Q P G G S L R L S C A A S G F T F E E Y A M L W V R Q A P G K G L E W V S G I N A R G Y T T Y Y A D S V K G R F T I S R D N S K N T L Y L Q M N S L R T E D T A V Y Y C A K P W Y P F M A S K G S E F D Y W G Q G T L V T V S S

Antigen Details
Antigen chainsC
Antigen typeprotein
Antigen namemdm4 protein
Antigen speciesHOMO SAPIENS
Antigen sequenceACRISPGQINQVRPKLPLLKILHAAGAQGEMFTVKEVMHYLGQYIMVKQLYDQQEQHMVYCGGDLLGELLGRQSFSVKDPSPLYDMLRKNLVTLATATTDA

CDR Sequences (chothia definition)
CDRH1GFTFEEY
CDRH2NARGYT
CDRH3PWYPFMASKGSEFDY

>   I/-
Fv Details
Heavy chainI
Light chain
Heavy subgroupIGHV3
Light subgroup
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 52A 52B 52C 53 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 101 102 103 104 105 106 107 108 109 110 111 112 113
E V Q L L E S G G G L V Q P G G S L R L S C A A S G F T F E E Y A M L W V R Q A P G K G L E W V S G I N A R G Y T T Y Y A D S V K G R F T I S R D N S K N T L Y L Q M N S L R T E D T A V Y Y C A K P W Y P F M A S K G S E F D Y W G Q G T L V T V S S

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen speciesSYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GFTFEEY
CDRH2NARGYT
CDRH3PWYPFMASKGSEFDY

>   K/-
Fv Details
Heavy chainK
Light chain
Heavy subgroupIGHV3
Light subgroup
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 52A 52B 52C 53 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 101 102 103 104 105 106 107 108 109 110 111 112 113
E V Q L L E S G G G L V Q P G G S L R L S C A A S G F T F E E Y A M L W V R Q A P G K G L E W V S G I N A R G Y T T Y Y A D S V K G R F T I S R D N S K N T L Y L Q M N S L R T E D T A V Y Y C A K P W Y P F M A S K G S E F D Y W G Q G T L V T V S S

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen speciesSYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GFTFEEY
CDRH2NARGYT
CDRH3PWYPFMASKGSEFDY

>   H/-
Fv Details
Heavy chainH
Light chain
Heavy subgroupIGHV3
Light subgroup
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 52A 52B 52C 53 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 101 102 103 104 105 106 107 108 109 110 111 112 113
E V Q L L E S G G G L V Q P G G S L R L S C A A S G F T F E E Y A M L W V R Q A P G K G L E W V S G I N A R G Y T T Y Y A D S V K G R F T I S R D N S K N T L Y L Q M N S L R T E D T A V Y Y C A K P W Y P F M A S K G S E F D Y W G Q G T L V T V S S

Antigen Details
Antigen chainsD
Antigen typeprotein
Antigen namemdm4 protein
Antigen speciesHOMO SAPIENS
Antigen sequenceACRISPGQINQVRPKLPLLKILHAAGAQGEMFTVKEVMHYLGQYIMVKQLYDQQEQHMVYCGGDLLGELLGRQSFSVKDPSPLYDMLRKNLVTLATATTDA

CDR Sequences (chothia definition)
CDRH1GFTFEEY
CDRH2NARGYT
CDRH3PWYPFMASKGSEFDY

>   J/-
Fv Details
Heavy chainJ
Light chain
Heavy subgroupIGHV3
Light subgroup
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 52A 52B 52C 53 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 101 102 103 104 105 106 107 108 109 110 111 112 113
E V Q L L E S G G G L V Q P G G S L R L S C A A S G F T F E E Y A M L W V R Q A P G K G L E W V S G I N A R G Y T T Y Y A D S V K G R F T I S R D N S K N T L Y L Q M N S L R T E D T A V Y Y C A K P W Y P F M A S K G S E F D Y W G Q G T L V T V S S

Antigen Details
Antigen chainsA
Antigen typeprotein
Antigen namemdm4 protein
Antigen speciesHOMO SAPIENS
Antigen sequenceACRISPGQINQVRPKLPLLKILHAAGAQGEMFTVKEVMHYLGQYIMVKQLYDQQEQHMVYCGGDLLGELLGRQSFSVKDPSPLYDMLRKNLVTLATATTDA

CDR Sequences (chothia definition)
CDRH1GFTFEEY
CDRH2NARGYT
CDRH3PWYPFMASKGSEFDY

>   L/-
Fv Details
Heavy chainL
Light chain
Heavy subgroupIGHV3
Light subgroup
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 52A 52B 52C 53 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 101 102 103 104 105 106 107 108 109 110 111 112 113
E V Q L L E S G G G L V Q P G G S L R L S C A A S G F T F E E Y A M L W V R Q A P G K G L E W V S G I N A R G Y T T Y Y A D S V K G R F T I S R D N S K N T L Y L Q M N S L R T E D T A V Y Y C A K P W Y P F M A S K G S E F D Y W G Q G T L V T V S S

Antigen Details
Antigen chains
Antigen type
Antigen name
Antigen speciesSYNTHETIC CONSTRUCT
Antigen sequence

CDR Sequences (chothia definition)
CDRH1GFTFEEY
CDRH2NARGYT
CDRH3PWYPFMASKGSEFDY

>   F/-
Fv Details
Heavy chainF
Light chain
Heavy subgroupIGHV3
Light subgroup
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 52A 52B 52C 53 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 101 102 103 104 105 106 107 108 109 110 111 112 113
E V Q L L E S G G G L V Q P G G S L R L S C A A S G F T F E E Y A M L W V R Q A P G K G L E W V S G I N A R G Y T T Y Y A D S V K G R F T I S R D N S K N T L Y L Q M N S L R T E D T A V Y Y C A K P W Y P F M A S K G S E F D Y W G Q G T L V T V S S

Antigen Details
Antigen chainsB
Antigen typeprotein
Antigen namemdm4 protein
Antigen speciesHOMO SAPIENS
Antigen sequenceACRISPGQINQVRPKLPLLKILHAAGAQGEMFTVKEVMHYLGQYIMVKQLYDQQEQHMVYCGGDLLGELLGRQSFSVKDPSPLYDMLRKNLVTLATATTDA

CDR Sequences (chothia definition)
CDRH1GFTFEEY
CDRH2NARGYT
CDRH3PWYPFMASKGSEFDY

>   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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