Structure of PDB 5bot Chain B

Receptor sequence
>5botB (length=166) Species: 9606 (Homo sapiens) [Search protein sequence]
YNVFPRTLKWSKMNLTYRIVNYTPDMTHSEVEKAFKKAFKVWSDVTPLNF
TRLHDGIADIMISFGIKEHGDFYPFDGPSGLLAHAFPPGPNYGGDAHFDD
DETWTSSSKGYNLFLVAAHEFGHSLGLDHSKDPGALMFPIYTYTGKSHFM
LPDDDVQGIQSLYGPG
3D structure
PDB5bot Fragment-based discovery of indole inhibitors of matrix metalloproteinase-13.
ChainB
Resolution1.85 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) H222 E223 H226 H232
Catalytic site (residue number reindexed from 1) H119 E120 H123 H129
Enzyme Commision number 3.4.24.-
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 4UM B H222 A238 L239 F241 P242 I243 Y244 T245 H119 A135 L136 F138 P139 I140 Y141 T142 MOAD: ic50=39uM
BindingDB: IC50=39000nM
BS02 ZN B H222 H226 H232 H119 H123 H129
BS03 ZN B H172 D174 H187 H200 H69 D71 H84 H97
BS04 CA B D128 D203 E205 D25 D100 E102
BS05 CA B D179 G180 S182 L184 D202 E205 D76 G77 S79 L81 D99 E102
BS06 CA B D162 N194 Y195 G196 D198 D59 N91 Y92 G93 D95
Gene Ontology
Molecular Function
GO:0004222 metalloendopeptidase activity
GO:0008237 metallopeptidase activity
GO:0008270 zinc ion binding
Biological Process
GO:0006508 proteolysis
Cellular Component
GO:0031012 extracellular matrix

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5bot, PDBe:5bot, PDBj:5bot
PDBsum5bot
PubMed22017539
UniProtP45452|MMP13_HUMAN Collagenase 3 (Gene Name=MMP13)

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