Structure Viewer: 5th9

>   Structure details

Structure Determination of a Potent, Selective antibody inhibitor of Human Mmp9 (Gs-5745 Bound to Mmp-9)

PDB5th9
SpeciesORYCTOLAGUS CUNICULUS
MethodX-RAY DIFFRACTION
Resolution2.999Å
Number of Fvs3
In complexTrue
Light chain typeKappa
Has constant regionTrue
AffinityNA
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>   Fv information

This PDB has 3 Fv(s).

>   J/N
Fv Details
Heavy chainJ
Light chainN
Heavy subgroupIGHV2
Light subgroupIGKV6
SpeciesORYCTOLAGUS CUNICULUS
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 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 99 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G P G L V K P S E T L S L T C T V S G F S L L S Y G V H W V R Q P P G K G L E W L G V I W T G G T T N Y N S A L M S R F T I S K D D S K N T V Y L K M N S L K T E D T A I Y Y C A R Y Y Y G M D Y 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 S V G D R V T I T C K A S Q D V R N T V A W Y Q Q K P G K A P K L L I Y S S S Y R N T G V P D R F S G S G S G T D F T L T I S S L Q A E D V A V Y Y C Q Q H Y I T P Y T F G G G T K V E I K

Antigen Details
Antigen chainsC
Antigen typeprotein
Antigen namematrix metalloproteinase-9,matrix metalloproteinase-9
Antigen speciesHOMO SAPIENS
Antigen sequenceMATDRQLAEEYLYRYGYTRVAEMRGESKSLGPALLLLQKQLSLPETGELDSATLKAMRTPRCGVPDLGRFQTFEGDLKWHHHNITYWIQNYSEDLPRAVIDDAFARAFALWSAVTPLTFTRVYSRDADIVIQFGVAEHGDGYPFDGKDGLLAHAFPPGPGIQGDAHFDDDELWSLGKGQGYSLFLVAAHEFGHALGLDHSSVPEALMYPMYRFTEGPPLHKDDVNGIRHLY

CDR Sequences (chothia definition)
CDRH1GFSLLSY
CDRH2WTGGT
CDRH3YYYGMDY
CDRL1KASQDVRNTVA
CDRL2SSSYRNT
CDRL3QQHYITPYT

Orientation Angles (from ABangle)
HL-56.46°
HC169.5°
HC2118.88°
LC1119.2°
LC282.0°
dc16.38Å
>   H/L
Fv Details
Heavy chainH
Light chainL
Heavy subgroupIGHV2
Light subgroupIGKV6
SpeciesORYCTOLAGUS CUNICULUS
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 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 99 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G P G L V K P S E T L S L T C T V S G F S L L S Y G V H W V R Q P P G K G L E W L G V I W T G G T T N Y N S A L M S R F T I S K D D S K N T V Y L K M N S L K T E D T A I Y Y C A R Y Y Y G M D Y 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 S V G D R V T I T C K A S Q D V R N T V A W Y Q Q K P G K A P K L L I Y S S S Y R N T G V P D R F S G S G S G T D F T L T I S S L Q A E D V A V Y Y C Q Q H Y I T P Y T F G G G T K V E I K

Antigen Details
Antigen chainsA
Antigen typeprotein
Antigen namematrix metalloproteinase-9,matrix metalloproteinase-9
Antigen speciesHOMO SAPIENS
Antigen sequenceMATDRQLAEEYLYRYGYTRVAEMRGESKSLGPALLLLQKQLSLPETGELDSATLKAMRTPRCGVPDLGRFQTFEGDLKWHHHNITYWIQNYSEDLPRAVIDDAFARAFALWSAVTPLTFTRVYSRDADIVIQFGVAEHGDGYPFDGKDGLLAHAFPPGPGIQGDAHFDDDELWSLGKGQGYSLFLVAAHEFGHALGLDHSSVPEALMYPMYRFTEGPPLHKDDVNGIRHLY

CDR Sequences (chothia definition)
CDRH1GFSLLSY
CDRH2WTGGT
CDRH3YYYGMDY
CDRL1KASQDVRNTVA
CDRL2SSSYRNT
CDRL3QQHYITPYT

Orientation Angles (from ABangle)
HL-57.02°
HC170.26°
HC2119.11°
LC1119.34°
LC282.12°
dc16.25Å
>   I/M
Fv Details
Heavy chainI
Light chainM
Heavy subgroupIGHV2
Light subgroupIGKV6
SpeciesORYCTOLAGUS CUNICULUS
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 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 99 101 102 103 104 105 106 107 108 109 110 111 112 113
Q V Q L Q E S G P G L V K P S E T L S L T C T V S G F S L L S Y G V H W V R Q P P G K G L E W L G V I W T G G T T N Y N S A L M S R F T I S K D D S K N T V Y L K M N S L K T E D T A I Y Y C A R Y Y Y G M D Y 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 S V G D R V T I T C K A S Q D V R N T V A W Y Q Q K P G K A P K L L I Y S S S Y R N T G V P D R F S G S G S G T D F T L T I S S L Q A E D V A V Y Y C Q Q H Y I T P Y T F G G G T K V E I K

Antigen Details
Antigen chainsB
Antigen typeprotein
Antigen namematrix metalloproteinase-9,matrix metalloproteinase-9
Antigen speciesHOMO SAPIENS
Antigen sequenceMATDRQLAEEYLYRYGYTRVAEMRGESKSLGPALLLLQKQLSLPETGELDSATLKAMRTPRCGVPDLGRFQTFEGDLKWHHHNITYWIQNYSEDLPRAVIDDAFARAFALWSAVTPLTFTRVYSRDADIVIQFGVAEHGDGYPFDGKDGLLAHAFPPGPGIQGDAHFDDDELWSLGKGQGYSLFLVAAHEFGHALGLDHSSVPEALMYPMYRFTEGPPLHKDDVNGIRHLY

CDR Sequences (chothia definition)
CDRH1GFSLLSY
CDRH2WTGGT
CDRH3YYYGMDY
CDRL1KASQDVRNTVA
CDRL2SSSYRNT
CDRL3QQHYITPYT

Orientation Angles (from ABangle)
HL-57.84°
HC170.18°
HC2118.46°
LC1119.48°
LC282.25°
dc16.13Å
>   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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