HUMAN BACE-1 IN COMPLEX WITH N-((1S,2R)-3-(((1S)-2-(CYCLOHEXYLAMINO)-1-METHYL-2-OXOETHYL)AMINO)-2-HYDROXY-1-(PHENYLMETHYL)PROPYL)-3-((METHYLSULFONYL)(PHENYL)AMINO) BENZAMIDE
2XFI
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Hydrolase
    Structure Weight: 44368.58
    Molecule: BETA-SECRETASE 1
    Polymer: 1 Type: protein Length: 392
    Chains: A
    EC#: 3.4.23.46   
    Fragment: RESIDUES 61-452
    Mutation: YES
    Organism: Homo sapiens
    Gene Names: Gene View for BACE1 BACE KIAA1149
    UniProtKB: Protein Feature View | Search PDB | P56817  
     
  •   Structure Validation Hide

    View the full validation report  

     

  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human Expression System: Cricetulus griseus  
     
  •   Related PDB Entries Hide
    Identifier Details
    1FKN   STRUCTURE OF BETA-SECRETASE COMPLEXED WITH INHIBITOR 
    1M4H   CRYSTAL STRUCTURE OF BETA-SECRETASE COMPLEXED WITHINHIBITOR OM00-3 
    1PY1   COMPLEX OF GGA1-VHS DOMAIN AND BETA- SECRETASE C-TERMINALPHOSPHOPEPTIDE 
    1SGZ   CRYSTAL STRUCTURE OF UNBOUND BETA-SECRETASE CATALYTICDOMAIN. 
    1TQF   CRYSTAL STRUCTURE OF HUMAN BETA SECRETASE COMPLEXED WITH L-124,671 
    1UJJ   VHS DOMAIN OF HUMAN GGA1 COMPLEXED WITH C -TERMINAL PEPTIDEFROM BACE 
    1UJK   VHS DOMAIN OF HUMAN GGA1 COMPLEXED WITH C -TERMINALPHOSPHOPEPTIDE FROM BACE 
    1W50   APO STRUCTURE OF BACE (BETA SECRETASE) 
    1W51   BACE (BETA SECRETASE) IN COMPLEX WITH A NANOMOLAR NON-PEPTIDIC INHIBITOR 
    1XN2   NEW SUBSTRATE BINDING POCKETS FOR BETA- SECRETASE. 
    1XN3   CRYSTAL STRUCTURE OF BETA-SECRETASE BOUND TO A LONGINHIBITOR WITH ADDITIONAL UPSTREAM RESIDUES. 
    1XS7   CRYSTAL STRUCTURE OF A CYCLOAMIDE-URETHANE- DERIVED NOVELINHIBITOR BOUND TO HUMAN BRAIN MEMAPSIN 2 (BETA-SECRETASE). 
    1YM2   CRYSTAL STRUCTURE OF HUMAN BETA SECRETASE COMPLEXED WITHNVP-AUR200 
    1YM4   CRYSTAL STRUCTURE OF HUMAN BETA SECRETASE COMPLEXED WITHNVP-AMK640 
    2B8L   CRYSTAL STRUCTURE OF HUMAN BETA SECRETASE COMPLEXED WITH L-000384950 
    2B8V   CRYSTAL STRUCTURE OF HUMAN BETA-SECRETASE COMPLEXED WITH L-L000430,469 
    2FDP   CRYSTAL STRUCTURE OF BETA-SECRETASE COMPLEXED WITH AN AMINO-ETHYLENE INHIBITOR 
    2VA5   X-RAY CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH COMPOUND 8C 
    2VA6   X-RAY CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH COMPOUND 24 
    2VA7   X-RAY CRYSTAL STRUCTURE OF BETA SECRETASE COMPLEXED WITH COMPOUND 27 
    2VIE   HUMAN BACE-1 IN COMPLEX WITH N-((1S,2R )-1-BENZYL-2-HYDROXY-3-((1,1,5- TRIMETHYLHEXYL)AMINO)PROPYL)-3-(ETHYLAMINO)-5 -(2-OXOPYRROLIDIN-1-YL)BENZAMIDE 
    2VIJ   HUMAN BACE-1 IN COMPLEX WITH 3-(1,1- DIOXIDOTETRAHYDRO-2H-1,2-THIAZIN-2-YL)-5 -(ETHYLAMINO)-N-((1S,2R)-2-HYDROXY-1-( PHENYLMETHYL)-3-(1,2,3,4-TETRAHYDRO-1- NAPHTHALENYLAMINO)PROPYL)BENZAMIDE 
    2VIY   HUMAN BACE-1 IN COMPLEX WITH N-((1S,2R )-3-(((1S)-2-(CYCLOHEXYLAMINO)-1-METHYL-2- OXOETHYL)AMINO)-2-HYDROXY-1-(PHENYLMETHYL) PROPYL)-3-(PENTYLSULFONYL)BENZAMIDE 
    2VIZ   HUMAN BACE-1 IN COMPLEX WITH N-((1S,2R )-3-(((1S)-2-(CYCLOHEXYLAMINO)-1-METHYL-2- OXOETHYL)AMINO)-2-HYDROXY-1-(PHENYLMETHYL) PROPYL)-3-(2-OXO-1-PYRROLIDINYL)-5-( PROPYLOXY)BENZAMIDE 
    2VJ6   HUMAN BACE-1 IN COMPLEX WITH N-((1S,2R )-3-(((1S)-2-(CYCLOHEXYLAMINO)-1-METHYL-2- OXOETHYL)AMINO)-2-HYDROXY-1-(PHENYLMETHYL) PROPYL)-3-(ETHYLAMINO)-5-(2-OXO-1- PYRROLIDINYL)BENZAMIDE 
    2VJ7   HUMAN BACE-1 IN COMPLEX WITH 3-(ETHYLAMINO )-N-((1S,2R)-2-HYDROXY-1-(PHENYLMETHYL)-3 -(((3-(TRIFLUOROMETHYL)PHENYL)METHYL)AMINO) PROPYL)-5-(2-OXO-1-PYRROLIDINYL)BENZAMIDE 
    2VJ9   HUMAN BACE-1 IN COMPLEX WITH N-((1S,2R )-3-(CYCLOHEXYLAMINO)-2-HYDROXY-1-( PHENYLMETHYL)PROPYL)-3-(ETHYLAMINO)-5-(2-OXO -1-PYRROLIDINYL)BENZAMIDE 
    2VKM   CRYSTAL STRUCTURE OF GRL-8234 BOUND TO BACE (BETA-SECRETASE) 
    2VNM   HUMAN BACE-1 IN COMPLEX WITH 3-(1,1- DIOXIDOTETRAHYDRO-2H-1,2-THIAZIN-2-YL)-5 -(ETHYLAMINO)-N-((1S,2R)-2-HYDROXY-1-( PHENYLMETHYL)-3-(((3-(TRIFLUOROMETHYL)PHENYL) METHYL)AMINO)PROPYL)BENZAMIDE 
    2VNN   HUMAN BACE-1 IN COMPLEX WITH 7-ETHYL-N -((1S,2R)-2-HYDROXY-1-(PHENYLMETHYL)-3-((( 3-(TRIFLUOROMETHYL)PHENYL)METHYL)AMINO)PROPYL )-1-METHYL-3,4-DIHYDRO-1H-(1,2,5) THIADIAZEPINO(3,4,5-HI)INDOLE-9- CARBOXAMIDE 2,2-DIOXIDE 
    2WEZ   HUMAN BACE-1 IN COMPLEX WITH 1-ETHYL-N -((1S,2R)-2-HYDROXY-3-(((3-(METHYLOXY) PHENYL)METHYL)AMINO)-1-(PHENYLMETHYL)PROPYL)- 4-(2-OXO-1-PYRROLIDINYL)-1H-INDOLE-6- CARBOXAMIDE 
    2WF0   HUMAN BACE-1 IN COMPLEX WITH 4-ETHYL-N -((1S,2R)-2-HYDROXY-1-(PHENYLMETHYL)-3-((( 3-(TRIFLUOROMETHYL)PHENYL)METHYL)AMINO)PROPYL )-8-(2-OXO-1-PYRROLIDINYL)-6- QUINOLINECARBOXAMIDE 
    2WF1   HUMAN BACE-1 IN COMPLEX WITH 7-ETHYL-N -((1S,2R)-2-HYDROXY-3-(((3-(METHYLOXY) PHENYL(METHYL)AMINO)-1-(PHENYLMETHYL)PROPYL)- 1-METHYL-3,4-DIHYDRO-1H-(1,2,5) THIADIAZEPINO(3,4,5-HI)INDOLE-9- CARBOXAMIDE 2,2-DIOXIDE 
    2WF2   HUMAN BACE-1 IN COMPLEX WITH 8-ETHYL-N -((1S,2R)-2-HYDROXY-3-(((3-(METHYLOXY) PHENYL)METHYL)AMINO)-1-(PHENYLMETHYL)PROPYL)- 1-METHYL-3,4,7,8-TETRAHYDRO-1H,6H-(1, 2,5)THIADIAZEPINO(5,4,3-DE)QUINOXALINE- 10-CARBOXAMIDE 2,2-DIOXIDE 
    2WF3   HUMAN BACE-1 IN COMPLEX WITH 6-(ETHYLAMINO )-N-((1S,2R)-2-HYDROXY-3-(((3-(METHYLOXY )PHENYL)METHYL)AMINO)-1-(PHENYLMETHYL)PROPYL )-1-METHYL-1,3,4,5-TETRAHYDRO-2,1- BENZOTHIAZEPINE-8-CARBOXAMIDE 2,2-DIOXIDE 
    2WF4   HUMAN BACE-1 IN COMPLEX WITH 6-ETHYL-1- METHYL-N-((1S)-2-OXO-1-(PHENYLMETHYL)-3-( TETRAHYDRO-2H-PYRAN-4-YLAMINO)PROPYL)-1,3 ,4,6-TETRAHYDRO(1,2)THIAZEPINO(5,4,3- CD)INDOLE-8-CARBOXAMIDE 2,2-DIOXIDE 
    2WJO   HUMAN BACE (BETA SECRETASE) IN COMPLEX WITH CYCLOHEXANECARBOXYLIC ACID (2-(2-AM INO-6 -PHENOXY-4H-QUINAZOLIN-3-YL)-2 -CYCLOHEXYL -ETHYL)-AMIDE 
    2XFJ   HUMAN BACE-1 IN COMPLEX WITH N-((1S,2R )-3-(((1S)-2-(CYCLOHEXYLAMINO)-1-METHYL-2- OXOETHYL)AMINO)-2-HYDROXY-1-(PHENYLMETHYL) PROPYL)-3-(ETHYLAMINO)-5-(2-OXO-1- PYRROLIDINYL)BENZAMIDE 
    2XFK   HUMAN BACE-1 IN COMPLEX WITH N-((1S,2R )-3-(((1S)-2-(CYCLOHEXYLAMINO)-1-METHYL-2- OXOETHYL)AMINO)-2-HYDROXY-1-(PHENYLMETHYL) PROPYL)-3-(ETHYLAMINO)-5-((METHYLSULFONYL)( PHENYL)AMINO)BENZAMIDE 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    XFI
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    XFI C33 H42 N4 O5 S
    N-((1S,2R)-3-(((1S)-2-(CYCLOHEXYLAMINO)-1- METHYL-2-OXOETHYL)AMINO)-2-HYDROXY-1-( PHENYLMETHYL)PROPYL)- 3-((METHYLSULFONYL)(PHENYL)AMINO) BENZAMIDE
    XFI:2XFI
     
  •   External Ligand Annotations Hide
    Identifier   Binding Affinity (Sequence Identity %)
    XFI
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    XFI
    IC50: 15 - 570 nM (98) - data from BindingDB  
    IC50: 15 nM - data from BindingMOAD  
    N/Ain PDBbind
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
 
Data in orange boxes are gathered from external resources (when available).
  Biological Assembly       
Biological assembly 1 generated by PISA (software)
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