Structure of PDB 5mt4 Chain A Binding Site BS01

Receptor Information
>5mt4 Chain A (length=228) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ILGGREAEAHARPYMASVQLNGAHLCGGVLVAEQWVLSAAHCLEDAADGK
VQVLLGAHSLSQPEPSKRLYDVLRAVPHPDSQPDTIDHDLLLLQLSEKAT
LGPAVRPLPWQRVDRDVAPGTLCDVAGWGIVNHAGRRPDSLQHVLLPVLD
RATCNRRTHHDGAITERLMCAESNRRDSCKGDSGGPLVCGGVLEGVVTSG
SRVCGNRKKPGIYTRVASYAAWIDSVLA
Ligand information
Ligand IDM7O
InChIInChI=1S/C15H14N2O3/c18-14(19)12-8-4-5-9-13(12)17-15(20)16-10-11-6-2-1-3-7-11/h1-9H,10H2,(H,18,19)(H2,16,17,20)
InChIKeyQCLRLHJAKXQKSY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.385OC(=O)c1ccccc1NC(=O)NCc2ccccc2
OpenEye OEToolkits 2.0.6c1ccc(cc1)CNC(=O)Nc2ccccc2C(=O)O
FormulaC15 H14 N2 O3
Name2-[(phenylmethyl)carbamoylamino]benzoic acid
ChEMBLCHEMBL561499
DrugBank
ZINC
PDB chain5mt4 Chain A Residue 301 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5mt4 Structure-Based Library Design and Fragment Screening for the Identification of Reversible Complement Factor D Protease Inhibitors.
Resolution1.65 Å
Binding residue
(original residue number in PDB)		H40 L41 H57 R151 K192 G193 S195 S215
Binding residue
(residue number reindexed from 1)		H24 L25 H41 R137 K180 G181 S183 S199
Annotation score1
Binding affinityMOAD: Kd~500uM
PDBbind-CN: -logKd/Ki=3.30,Kd~500uM
Enzymatic activity
Catalytic site (original residue number in PDB) H57 D102 K192 G193 D194 S195 G196
Catalytic site (residue number reindexed from 1) H41 D89 K180 G181 D182 S183 G184
Enzyme Commision number 3.4.21.46: complement factor D.
Gene Ontology
Molecular Function
GO:0004252 serine-type endopeptidase activity
GO:0008236 serine-type peptidase activity
Biological Process
GO:0006508 proteolysis
GO:0006956 complement activation
GO:0006957 complement activation, alternative pathway
GO:0009617 response to bacterium
Cellular Component
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0031093 platelet alpha granule lumen
GO:0034774 secretory granule lumen
GO:0070062 extracellular exosome
GO:1904813 ficolin-1-rich granule lumen

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5mt4, PDBe:5mt4, PDBj:5mt4
PDBsum5mt4
PubMed28157311
UniProtP00746|CFAD_HUMAN Complement factor D (Gene Name=CFD)

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