BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 039965
(419 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VLA|A Chain A, Crystal Structure Of Edgp
Length = 413
Score = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 99/384 (25%), Positives = 162/384 (42%), Gaps = 78/384 (20%)
Query: 75 MVLDTGSELSWLHCKKTVSFNSIFNPLLSSSYSPVPCNSPTCKIKTQ-------DLPVPA 127
+V+D G W+ C + +SS+Y PV C + C + + P P
Sbjct: 37 LVVDLGGRFLWVDCDQN---------YVSSTYRPVRCRTSQCSLSGSIACGDCFNGPRPG 87
Query: 128 SCD-------PKGLCRVTLT----YADLTSTEGNLATETILIGGPARPGFEDARTT---- 172
C+ P+ T T D+ S E + + + R F A T+
Sbjct: 88 -CNNNTCGVFPENPVINTATGGEVAEDVVSVESTDGSSSGRVVTVPRFIFSCAPTSLLQN 146
Query: 173 ------GLMGMNRGSLSFITQMGFP-----KFSYCISGVDSSG-VLLFGDASFAWL---- 216
G+ G+ R ++ +Q KF+ C+SG SS V++FG+ + +L
Sbjct: 147 LASGVVGMAGLGRTRIALPSQFASAFSFKRKFAMCLSGSTSSNSVIIFGNDPYTFLPNII 206
Query: 217 ---KPLSYTPLVRISKPLPYFD-------RVAYSVQLEGIKVGSKVLNLPKSVFIPDHTG 266
K L+YTPL ++ P+ V Y + ++ IK+ SK++ L S+ G
Sbjct: 207 VSDKTLTYTPL--LTNPVSTSATSTQGEPSVEYFIGVKSIKINSKIVALNTSLLSISSAG 264
Query: 267 AGQTMVDSGTQFTFLLGEVYSALKNEFIQQT--KGILRVFDDPNFVFQGAMDLCYLIEST 324
G T + + +T L +Y A+ FI+++ + I RV F GA I ST
Sbjct: 265 LGGTKISTINPYTVLETSIYKAVTEAFIKESAARNITRVASVAPF---GACFSTDNILST 321
Query: 325 --GPSLPRLPIVSLMFSGAEMSVSGERLLYRVPGLSRGRDSVYCFTF--GNSDLLGIEAF 380
GPS+P + +V L +++G + + D+V C G S+L +
Sbjct: 322 RLGPSVPSIDLV-LQSESVVWTITGSNSMVYI------NDNVVCLGVVDGGSNLR--TSI 372
Query: 381 VIGHHHQQNLWVEFDLINSRVGFA 404
VIG H ++ V+FDL SRVGF+
Sbjct: 373 VIGGHQLEDNLVQFDLATSRVGFS 396
>pdb|3VLB|A Chain A, Crystal Structure Of Xeg-Edgp
pdb|3VLB|C Chain C, Crystal Structure Of Xeg-Edgp
Length = 413
Score = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 99/384 (25%), Positives = 162/384 (42%), Gaps = 78/384 (20%)
Query: 75 MVLDTGSELSWLHCKKTVSFNSIFNPLLSSSYSPVPCNSPTCKIKTQ-------DLPVPA 127
+V+D G W+ C + +SS+Y PV C + C + + P P
Sbjct: 37 LVVDLGGRFLWVDCDQN---------YVSSTYRPVRCRTSQCSLSGSIACGDCFNGPRPG 87
Query: 128 SCD-------PKGLCRVTLT----YADLTSTEGNLATETILIGGPARPGFEDARTT---- 172
C+ P+ T T D+ S E + + + R F A T+
Sbjct: 88 -CNNNTCGVFPENPVINTATGGEVAEDVVSVESTDGSSSGRVVTVPRFIFSCAPTSLLQN 146
Query: 173 ------GLMGMNRGSLSFITQMGFP-----KFSYCISGVDSSG-VLLFGDASFAWL---- 216
G+ G+ R ++ +Q KF+ C+SG SS V++FG+ + +L
Sbjct: 147 LASGVVGMAGLGRTRIALPSQFASAFSFKRKFAMCLSGSTSSNSVIIFGNDPYTFLPNII 206
Query: 217 ---KPLSYTPLVRISKPLPYFD-------RVAYSVQLEGIKVGSKVLNLPKSVFIPDHTG 266
K L+YTPL ++ P+ V Y + ++ IK+ SK++ L S+ G
Sbjct: 207 VSDKTLTYTPL--LTNPVSTSATSTQGEPSVEYFIGVKSIKINSKIVALNTSLLSISSAG 264
Query: 267 AGQTMVDSGTQFTFLLGEVYSALKNEFIQQT--KGILRVFDDPNFVFQGAMDLCYLIEST 324
G T + + +T L +Y A+ FI+++ + I RV F GA I ST
Sbjct: 265 LGGTKISTINPYTVLETSIYKAVTEAFIKESAARNITRVASVAPF---GACFSTDNILST 321
Query: 325 --GPSLPRLPIVSLMFSGAEMSVSGERLLYRVPGLSRGRDSVYCFTF--GNSDLLGIEAF 380
GPS+P + +V L +++G + + D+V C G S+L +
Sbjct: 322 RLGPSVPSIDLV-LQSESVVWTITGSNSMVYI------NDNVVCLGVVDGGSNLR--TSI 372
Query: 381 VIGHHHQQNLWVEFDLINSRVGFA 404
VIG H ++ V+FDL SRVGF+
Sbjct: 373 VIGGHQLEDNLVQFDLATSRVGFS 396
>pdb|3QI1|A Chain A, Design And Synthesis Of Hydroxyethylamine (Hea) Bace-1
Inhibitors: Prime Side Chromane-Containing Inhibitors
Length = 408
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 147/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P +
Sbjct: 32 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGA 91
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 92 WAGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 149
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 150 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 207
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 208 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 251
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 252 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 305
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 306 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 361
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 362 DRARKRIGFAVSACHVHDE 380
>pdb|1TQF|A Chain A, Crystal Structure Of Human Beta Secretase Complexed With
Inhibitor
pdb|2B8L|A Chain A, Crystal Structure Of Human Beta Secretase Complexed With
Inhibitor
pdb|2B8V|A Chain A, Crystal Structure Of Human Beta-Secretase Complexed With
L- L000430,469
pdb|2IRZ|A Chain A, Crystal Structure Of Human Beta-Secretase Complexed With
Inhibitor
pdb|2IS0|A Chain A, Crystal Structure Of Human Beta-Secretase Complexed With
Inhibitor
pdb|2PH6|A Chain A, Crystal Structure Of Human Beta Secretase Complexed With
Inhibitor
pdb|2OAH|A Chain A, Crystal Structure Of Human Beta Secretase Complexed With
Inhibitor
pdb|2P8H|A Chain A, Crystal Structure Of Human Beta Secretase Complexed With
Inhibitor
pdb|2NTR|A Chain A, Crystal Structure Of Human Bace-1 Bound To Inhibitor
pdb|2PH8|A Chain A, Crystal Structure Of Human Beta Secretase Complexed With
Inhibitor
pdb|2QZK|A Chain A, Crystal Structure Of Human Beta Secretase Complexed With
I21
pdb|2ZJM|A Chain A, Crystal Structure Of The Human Bace1 Catalytic Domain In
Complex With
N-[1-(5-Chloro-2-Isopropoxy-3-Methoxy-Benzyl)-
Piperidin-4-Yl]-2-(4-Sulfamoyl-Phenoxy)-Acetamide
pdb|3FKT|A Chain A, Crystal Structure Of Human Beta Secretase Complexed With
Spiropiperdine Iminohydantoin Inhibitor
Length = 405
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 147/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P +
Sbjct: 36 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGA 95
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 96 WAGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 153
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 154 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 211
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 212 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 255
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 256 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 309
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 310 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 365
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 366 DRARKRIGFAVSACHVHDE 384
>pdb|2Q15|A Chain A, Structure Of Bace Complexed To Compound 3a
Length = 385
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 147/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 16 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 75
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P+ R + + ++ EG L I P +
Sbjct: 76 WEGELGTDLVSIPHG--PQVTVRANIAAITESDKFFIQGSNWEGILGLAYAEIARPDDSL 133
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP + S ++ V S ++ D S + L YT
Sbjct: 134 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLQQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 191
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 192 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 235
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 236 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 289
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 290 EVTQQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 345
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 346 DRARKRIGFAVSACHVHDE 364
>pdb|3EXO|A Chain A, Crystal Structure Of Bace1 Bound To Inhibitor
Length = 413
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 147/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P +
Sbjct: 36 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGA 95
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 96 WAGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 153
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 154 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 211
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 212 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 255
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 256 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 309
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 310 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 365
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 366 DRARKRIGFAVSACHVHDE 384
>pdb|2VIE|A Chain A, 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
pdb|2VIJ|A Chain A, 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
pdb|2VIY|A Chain A, 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
pdb|2VIZ|A Chain A, 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
pdb|2VJ6|A Chain A, 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
pdb|2VJ7|A Chain A, 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
pdb|2VJ9|A Chain A, Human Bace-1 In Complex With
N-((1s,2r)-3-(Cyclohexylamino)-
2-Hydroxy-1-(Phenylmethyl)propyl)-3-(Ethylamino)-5-(2-
Oxo- 1-Pyrrolidinyl)benzamide
pdb|2VNM|A Chain A, 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
pdb|2VNN|A Chain A, 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
pdb|2WF4|A Chain A, 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
pdb|2WEZ|A Chain A, 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
pdb|2WF0|A Chain A, 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
pdb|2WF1|A Chain A, 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
pdb|2WF2|A Chain A, 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
pdb|2WF3|A Chain A, 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
pdb|2XFI|A Chain A, 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
pdb|2XFJ|A Chain A, 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
pdb|2XFK|A Chain A, 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
Length = 392
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 147/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 17 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 76
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P+ R + + ++ EG L I P +
Sbjct: 77 WEGELGTDLVSIPHG--PQVTVRANIAAITESDKFFIQGSNWEGILGLAYAEIARPDDSL 134
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP + S ++ V S ++ D S + L YT
Sbjct: 135 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLQQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 192
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 193 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 236
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 237 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 290
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 291 EVTQQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 346
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 347 DRARKRIGFAVSACHVHDE 365
>pdb|2QZL|A Chain A, Crystal Structure Of Human Beta Secretase Complexed With
Ixs
Length = 411
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 147/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P +
Sbjct: 42 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGA 101
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 102 WAGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 159
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 160 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 217
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 218 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 261
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 262 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 315
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 316 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 371
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 372 DRARKRIGFAVSACHVHDE 390
>pdb|2Q11|A Chain A, Structure Of Bace Complexed To Compound 1
pdb|2Q11|B Chain B, Structure Of Bace Complexed To Compound 1
pdb|2Q11|C Chain C, Structure Of Bace Complexed To Compound 1
Length = 388
Score = 45.1 bits (105), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 84/376 (22%), Positives = 146/376 (38%), Gaps = 57/376 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 19 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 78
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P+ R + + ++ EG L I P +
Sbjct: 79 WEGELGTDLVSIPHG--PQVTVRANIAAITESDKFFIQGSNWEGILGLAYAEIARPDDSL 136
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP + S ++ V S ++ D S + L YT
Sbjct: 137 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLQQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 194
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 195 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 238
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 239 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 292
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 293 EVTQQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 348
Query: 395 DLINSRVGFAEVRCDI 410
D R+GFA C +
Sbjct: 349 DRARKRIGFAVSACHV 364
>pdb|3TPJ|A Chain A, Apo Structure Of Bace1
pdb|3TPL|A Chain A, Apo Structure Of Bace1
pdb|3TPL|B Chain B, Apo Structure Of Bace1
pdb|3TPL|C Chain C, Apo Structure Of Bace1
pdb|3TPP|A Chain A, Crystal Structure Of Bace1 Complexed With An Inhibitor
pdb|3UQP|A Chain A, Crystal Structure Of Bace1 With Its Inhibitor
pdb|3UQU|A Chain A, Crystal Structure Of Bace1 With Its Inhibitor
pdb|3UQW|A Chain A, Crystal Structure Of Bace1 With Its Inhibitor
pdb|3UQX|A Chain A, Crystal Structure Of Bace1 With Its Inhibitor
pdb|4DV9|A Chain A, Crystal Structure Of Bace1 With Its Inhibitor
pdb|4DVF|A Chain A, Crystal Structure Of Bace1 With Its Inhibitor
pdb|4DVF|B Chain B, Crystal Structure Of Bace1 With Its Inhibitor
pdb|4FGX|A Chain A, Crystal Structure Of Bace1 With Novel Inhibitor
Length = 433
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 147/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P +
Sbjct: 56 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGA 115
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 116 WAGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 173
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 174 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 231
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 232 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 275
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 276 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 329
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 330 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 385
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 386 DRARKRIGFAVSACHVHDE 404
>pdb|3DM6|A Chain A, Beta-Secretase 1 Complexed With Statine-Based Inhibitor
pdb|3DM6|B Chain B, Beta-Secretase 1 Complexed With Statine-Based Inhibitor
pdb|3DM6|C Chain C, Beta-Secretase 1 Complexed With Statine-Based Inhibitor
pdb|3I25|A Chain A, Potent Beta-Secretase 1 Hydroxyethylene Inhibitor
pdb|3I25|B Chain B, Potent Beta-Secretase 1 Hydroxyethylene Inhibitor
pdb|3I25|C Chain C, Potent Beta-Secretase 1 Hydroxyethylene Inhibitor
Length = 406
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 37 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 96
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 97 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 154
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 155 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 212
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 213 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 256
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 257 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 310
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 311 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 366
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 367 DRARKRIGFAVSACHVHDE 385
>pdb|1YM4|A Chain A, Crystal Structure Of Human Beta Secretase Complexed With
Nvp-Amk640
pdb|1YM4|B Chain B, Crystal Structure Of Human Beta Secretase Complexed With
Nvp-Amk640
pdb|1YM4|C Chain C, Crystal Structure Of Human Beta Secretase Complexed With
Nvp-Amk640
pdb|3K5D|A Chain A, Crystal Structure Of Bace-1 In Complex With Ahm178
pdb|3K5D|B Chain B, Crystal Structure Of Bace-1 In Complex With Ahm178
pdb|3K5D|C Chain C, Crystal Structure Of Bace-1 In Complex With Ahm178
pdb|3MSK|A Chain A, Fragment Based Discovery And Optimisation Of Bace-1
Inhibitors
pdb|3MSL|A Chain A, Fragment Based Discovery And Optimisation Of Bace-1
Inhibitors
pdb|3S2O|A Chain A, Fragment Based Discovery And Optimisation Of Bace-1
Inhibitors
pdb|4D85|A Chain A, Crystal Structure Of Human Beta Secretase In Complex With
Nvp-Bvi151
Length = 408
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 32 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 91
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 92 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 149
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 150 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 207
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 208 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 251
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 252 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 305
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 306 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 361
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 362 DRARKRIGFAVSACHVHDE 380
>pdb|4EWO|A Chain A, Design And Synthesis Of Potent Hydroxyethylamine (Hea)
Bace-1 Inhibitors
pdb|4EXG|A Chain A, Design And Synthesis Of Potent Hydroxyethylamine (Hea)
Bace-1 Inhibitors
Length = 386
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 17 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 76
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 77 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 134
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 135 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 192
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 193 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 236
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 237 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 290
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 291 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 346
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 347 DRARKRIGFAVSACHVHDE 365
>pdb|3AUP|A Chain A, Crystal Structure Of Basic 7s Globulin From Soybean
pdb|3AUP|B Chain B, Crystal Structure Of Basic 7s Globulin From Soybean
pdb|3AUP|C Chain C, Crystal Structure Of Basic 7s Globulin From Soybean
pdb|3AUP|D Chain D, Crystal Structure Of Basic 7s Globulin From Soybean
Length = 403
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 89/391 (22%), Positives = 142/391 (36%), Gaps = 80/391 (20%)
Query: 62 VSLKLGSPPQDVTMVLDTGSELSWLHCKKTVSFNSIFNPLLSSSYSPVPCNSPTCKIKT- 120
+L+ +P V +++D W++C++ S S +Y C+S C
Sbjct: 25 ANLQKRTPLMQVPVLVDLNGNHLWVNCEQQYS---------SKTYQAPFCHSTQCSRANT 75
Query: 121 -QDLPVPASCDP---KGLCRVTLTYADLTSTE-GNLATETILIG---------GP----- 161
Q L PA+ P K C + T T G L + + I GP
Sbjct: 76 HQCLSCPAASRPGCHKNTCGLMSTNPITQQTGLGELGEDVLAIHATQGSTQQLGPLVTVP 135
Query: 162 -----ARPGFEDAR-----TTGLMGMNRGSLSFITQMGFP-----KFSYCISGVDSS-GV 205
P F + T G+ G+ +S Q+ +F+ C+S +S G
Sbjct: 136 QFLFSCAPSFLVQKGLPRNTQGVAGLGHAPISLPNQLASHFGLQRQFTTCLSRYPTSKGA 195
Query: 206 LLFGDA--------SFAWLKPLSYTPLVRISKPLPYFDRVAYSVQLEGIKVGSKV---LN 254
++FGDA + L++TPL + Y+V++ I++ LN
Sbjct: 196 IIFGDAPNNMRQFQNQDIFHDLAFTPLTITLQG-------EYNVRVNSIRINQHSVFPLN 248
Query: 255 LPKSVFIPDHTGAGQTMVDSGTQFTFLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGA 314
S + +G TM+ + T L VY A F QQ +V F
Sbjct: 249 KISSTIVGSTSGG--TMISTSTPHMVLQQSVYQAFTQVFAQQLPKQAQVKSVAPF----- 301
Query: 315 MDLCYLIESTGPSLPRLPIVSLMFSGAEMSVSGERLLYRV-PGLSRGRDSVYCFTFGNSD 373
LC+ + P + +V +G +SGE L+ + PG V C N
Sbjct: 302 -GLCFNSNKIN-AYPSVDLVMDKPNGPVWRISGEDLMVQAQPG-------VTCLGVMNGG 352
Query: 374 LLGIEAFVIGHHHQQNLWVEFDLINSRVGFA 404
+ +G + V FDL SRVGF+
Sbjct: 353 MQPRAEITLGARQLEENLVVFDLARSRVGFS 383
>pdb|3IXK|A Chain A, Potent Beta-Secretase 1 Inhibitor
pdb|3IXK|B Chain B, Potent Beta-Secretase 1 Inhibitor
pdb|3IXK|C Chain C, Potent Beta-Secretase 1 Inhibitor
pdb|3KYR|A Chain A, Bace-1 In Complex With A Norstatine Type Inhibitor
pdb|3KYR|B Chain B, Bace-1 In Complex With A Norstatine Type Inhibitor
pdb|3KYR|C Chain C, Bace-1 In Complex With A Norstatine Type Inhibitor
Length = 405
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 36 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 95
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 96 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 153
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 154 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 211
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 212 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 255
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 256 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 309
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 310 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 365
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 366 DRARKRIGFAVSACHVHDE 384
>pdb|2HM1|A Chain A, Crystal Structure Of Human Beta-Secretase (Bace) In The
Presence Of An Inhibitor (2)
pdb|2IQG|A Chain A, Crystal Structure Of Hydroxyethyl Secondary Amine-Based
Peptidomimetic Inhibitor Of Human Beta-Secretase (Bace)
pdb|3IVH|A Chain A, Design And Synthesis Of Potent Bace-1 Inhibitors With
Cellular Activity: Structure-Activity Relationship Of P1
Substituents
pdb|3IVI|A Chain A, Design And Synthesis Of Potent Bace-1 Inhibitors With
Cellular Activity: Structure-Activity Relationship Of P1
Substituents
pdb|3IVI|B Chain B, Design And Synthesis Of Potent Bace-1 Inhibitors With
Cellular Activity: Structure-Activity Relationship Of P1
Substituents
pdb|3IVI|C Chain C, Design And Synthesis Of Potent Bace-1 Inhibitors With
Cellular Activity: Structure-Activity Relationship Of P1
Substituents
pdb|3NSH|A Chain A, Bace-1 In Complex With Eln475957
pdb|3NSH|B Chain B, Bace-1 In Complex With Eln475957
pdb|3NSH|C Chain C, Bace-1 In Complex With Eln475957
pdb|3N4L|A Chain A, Bace-1 In Complex With Eln380842
pdb|3N4L|B Chain B, Bace-1 In Complex With Eln380842
pdb|3N4L|C Chain C, Bace-1 In Complex With Eln380842
Length = 406
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/376 (22%), Positives = 145/376 (38%), Gaps = 57/376 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 22 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 81
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 82 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 139
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 140 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 197
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 198 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 241
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 242 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 295
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 296 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 351
Query: 395 DLINSRVGFAEVRCDI 410
D R+GFA C +
Sbjct: 352 DRARKRIGFAVSACHV 367
>pdb|3HVG|A Chain A, Structure Of Bace (Beta Secretase) In Complex With Ev0
pdb|3HVG|B Chain B, Structure Of Bace (Beta Secretase) In Complex With Ev0
pdb|3HVG|C Chain C, Structure Of Bace (Beta Secretase) In Complex With Ev0
pdb|3HW1|A Chain A, Structure Of Bace (Beta Secretase) In Complex With Ligand
Ev2
pdb|3HW1|B Chain B, Structure Of Bace (Beta Secretase) In Complex With Ligand
Ev2
pdb|3HW1|C Chain C, Structure Of Bace (Beta Secretase) In Complex With Ligand
Ev2
pdb|3MSJ|A Chain A, Structure Of Bace (Beta Secretase) In Complex With
Inhibitor
pdb|3MSJ|B Chain B, Structure Of Bace (Beta Secretase) In Complex With
Inhibitor
pdb|3MSJ|C Chain C, Structure Of Bace (Beta Secretase) In Complex With
Inhibitor
Length = 411
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 35 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 94
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 95 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 152
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 153 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 210
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 211 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 254
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 255 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 308
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 309 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 364
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 365 DRARKRIGFAVSACHVHDE 383
>pdb|2ZJI|A Chain A, Crystal Structure Of The Human Bace1 Catalytic Domain In
Complex With
N-[1-(2,
6-Dimethoxy-Benzyl)-Piperidin-4-Yl]-4-Mercapto-
Butyramide
Length = 405
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 36 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 95
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 96 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 153
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 154 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 211
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 212 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 255
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 256 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 309
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 310 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSCGTVMGAVI----MEGFYVVF 365
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 366 DRARKRIGFAVSACHVHDE 384
>pdb|1W50|A Chain A, Apo Structure Of Bace (beta Secretase)
pdb|1W51|A Chain A, Bace (Beta Secretase) In Complex With A Nanomolar Non-
Peptidic Inhibitor
pdb|3RSV|A Chain A, Structure Of Bace-1 (Beta-Secretase) In Complex With
(R)-3-(2-Amino-6-
O-Tolylquinolin-3-Yl)-N-((R)-2,
2-Dimethyltetrahydro-2h-Pyran-4-Yl)-2- Methylpropanamide
pdb|3RSX|A Chain A, Structure Of Bace-1 (Beta-Secretase) In Complex With
6-(Thiophen-3- Yl)quinolin-2-Amine
pdb|3RTH|A Chain A, Structure Of Bace-1 (Beta-Secretase) In Complex With
6-(2-(3,3- Dimethylbut-1-Ynyl)phenyl)quinolin-2-Amine
pdb|3RTM|A Chain A, Structure Of Bace-1 (Beta-Secretase) In Complex With 3-(2-
Aminoquinolin-3-Yl)-N-Cyclohexyl-N-Methylpropanamide
pdb|3RTN|A Chain A, Structure Of Bace-1 (Beta-Secretase) In Complex With
3-(2-Amino-6-O-
Tolylquinolin-3-Yl)-N-Cyclohexylpropanamide
pdb|3RU1|A Chain A, Structure Of Bace-1 (Beta-Secretase) In Complex With 3-(2-
Aminoquinolin-3-Yl)-N-(Cyclohexylmethyl)propanamide
pdb|3RVI|A Chain A, Structure Of Bace-1 (Beta-Secretase) In Complex With
2-((2-Amino-6-O-
Tolylquinolin-3-Yl)methyl)-N-
(Cyclohexylmethyl)pentanamide
pdb|4ACU|A Chain A, Aminoimidazoles As Bace-1 Inhibitors. X-Ray Crystal
Structure Of Beta Secretase Complexed With Compound 14
pdb|4ACX|A Chain A, Aminoimidazoles As Bace-1 Inhibitors. X-Ray Crystal
Structure Of Beta Secretase Complexed With Compound 23
pdb|4DH6|A Chain A, Structure Of Bace-1 (Beta-Secretase) In Complex With
(2r)-N-((2s,3r)-
1-(Benzo[d][1,
3]dioxol-5-Yl)-3-Hydroxy-4-((S)-6'-Neopentyl-3',4'-
Dihydrospiro[cyclobutane-1,2'-Pyrano[2,
3-B]pyridine]-4'-Ylamino)
Butan-2-Yl)-2-Methoxypropanamide
pdb|4FRI|A Chain A, Crystal Structure Of Bace1 In Complex With Biarylspiro
Aminooxazoline 6
pdb|4FRJ|A Chain A, Crystal Structure Of Bace1 In Complex With Aminooxazoline
Xanthene 9l
pdb|4FRK|A Chain A, Crystal Structure Of Bace1 In Complex With Aminooxazoline
Xanthene 11a
pdb|4DI2|A Chain A, Crystal Structure Of Bace1 In Complex With
Hydroxyethylamine Inhibitor 37
pdb|4DI2|B Chain B, Crystal Structure Of Bace1 In Complex With
Hydroxyethylamine Inhibitor 37
pdb|4DI2|C Chain C, Crystal Structure Of Bace1 In Complex With
Hydroxyethylamine Inhibitor 37
pdb|4DUS|A Chain A, Structure Of Bace-1 (Beta-Secretase) In Complex With
N-((2s,3r)-1-(4-
Fluorophenyl)-3-Hydroxy-4-((6'-Neopentyl-3',4'-
Dihydrospiro[cyclobutane-1,2'-Pyrano[2,
3-B]pyridin]-4'-Yl)amino) Butan-2-Yl)acetamide
pdb|4AZY|A Chain A, Design And Synthesis Of Bace1 Inhibitors With In Vivo
Brain Reduction Of Beta-Amyloid Peptides (Compound 10)
pdb|4B00|A Chain A, Design And Synthesis Of Bace1 Inhibitors With In Vivo
Brain Reduction Of Beta-Amyloid Peptides (Compound
(R)-41)
pdb|4B05|A Chain A, Preclinical Characterization Of Azd3839, A Novel Clinical
Candidate Bace1 Inhibitor For The Treatment Of Alzheimer
Disease
Length = 411
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 35 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 94
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 95 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 152
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 153 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 210
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 211 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 254
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 255 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 308
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 309 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 364
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 365 DRARKRIGFAVSACHVHDE 383
>pdb|1YM2|A Chain A, Crystal Structure Of Human Beta Secretase Complexed With
Nvp-Aur200
pdb|1YM2|B Chain B, Crystal Structure Of Human Beta Secretase Complexed With
Nvp-Aur200
pdb|1YM2|C Chain C, Crystal Structure Of Human Beta Secretase Complexed With
Nvp-Aur200
pdb|2F3E|A Chain A, Crystal Structure Of The Bace Complex With Axq093, A
Macrocyclic Inhibitor
pdb|2F3E|B Chain B, Crystal Structure Of The Bace Complex With Axq093, A
Macrocyclic Inhibitor
pdb|2F3E|C Chain C, Crystal Structure Of The Bace Complex With Axq093, A
Macrocyclic Inhibitor
pdb|2F3F|A Chain A, Crystal Structure Of The Bace Complex With Bdf488, A
Macrocyclic Inhibitor
pdb|2F3F|B Chain B, Crystal Structure Of The Bace Complex With Bdf488, A
Macrocyclic Inhibitor
pdb|2F3F|C Chain C, Crystal Structure Of The Bace Complex With Bdf488, A
Macrocyclic Inhibitor
pdb|3DUY|A Chain A, Crystal Structure Of Human Beta-Secretase In Complex With
Nvp-Afj144
pdb|3DUY|B Chain B, Crystal Structure Of Human Beta-Secretase In Complex With
Nvp-Afj144
pdb|3DUY|C Chain C, Crystal Structure Of Human Beta-Secretase In Complex With
Nvp-Afj144
pdb|3DV1|A Chain A, Crystal Structure Of Human Beta-Secretase In Complex With
Nvp-Arv999
pdb|3DV1|B Chain B, Crystal Structure Of Human Beta-Secretase In Complex With
Nvp-Arv999
pdb|3DV1|C Chain C, Crystal Structure Of Human Beta-Secretase In Complex With
Nvp-Arv999
pdb|3DV5|A Chain A, Crystal Structure Of Human Beta-Secretase In Complex With
Nvp-Bav544
pdb|3DV5|B Chain B, Crystal Structure Of Human Beta-Secretase In Complex With
Nvp-Bav544
pdb|3DV5|C Chain C, Crystal Structure Of Human Beta-Secretase In Complex With
Nvp-Bav544
pdb|3K5C|A Chain A, Human Bace-1 Complex With Nb-216
pdb|3K5C|B Chain B, Human Bace-1 Complex With Nb-216
pdb|3K5C|C Chain C, Human Bace-1 Complex With Nb-216
pdb|3K5F|A Chain A, Human Bace-1 Complex With Ayh011
pdb|3K5F|B Chain B, Human Bace-1 Complex With Ayh011
pdb|3K5F|C Chain C, Human Bace-1 Complex With Ayh011
pdb|3K5G|A Chain A, Human Bace-1 Complex With Bjc060
pdb|3K5G|B Chain B, Human Bace-1 Complex With Bjc060
pdb|3K5G|C Chain C, Human Bace-1 Complex With Bjc060
pdb|3PI5|A Chain A, Crystal Structure Of Human Beta Secretase In Complex With
Bfg356
pdb|3PI5|B Chain B, Crystal Structure Of Human Beta Secretase In Complex With
Bfg356
pdb|3PI5|C Chain C, Crystal Structure Of Human Beta Secretase In Complex With
Bfg356
pdb|3QBH|A Chain A, Structure Based Design, Synthesis And Sar Of Cyclic
Hydroxyethylamine (Hea) Bace-1 Inhibitors
pdb|3QBH|B Chain B, Structure Based Design, Synthesis And Sar Of Cyclic
Hydroxyethylamine (Hea) Bace-1 Inhibitors
pdb|3QBH|C Chain C, Structure Based Design, Synthesis And Sar Of Cyclic
Hydroxyethylamine (Hea) Bace-1 Inhibitors
pdb|3VEU|A Chain A, Crystal Structure Of Human Beta Secretase In Complex With
Nvp-Avi326
pdb|3VF3|A Chain A, Crystal Structure Of Human Beta Secretase In Complex With
Nvp-Bqq711
pdb|3VG1|A Chain A, Crystal Structure Of Human Beta Secretase In Complex With
Nvp-Bur436, Derived From A Soaking Experiment
pdb|4D83|A Chain A, Crystal Structure Of Human Beta Secretase In Complex With
Nvp-Bur436, Derived From A Co-Crystallization Experiment
pdb|4D83|B Chain B, Crystal Structure Of Human Beta Secretase In Complex With
Nvp-Bur436, Derived From A Co-Crystallization Experiment
pdb|4D83|C Chain C, Crystal Structure Of Human Beta Secretase In Complex With
Nvp-Bur436, Derived From A Co-Crystallization Experiment
pdb|4D88|A Chain A, Crystal Structure Of Human Beta Secretase In Complex With
Nvp-Bxq490
pdb|4D89|A Chain A, Crystal Structure Of Human Beta Secretase In Complex With
Nvp-Bxd552, Derived From A Soaking Experiment
pdb|4D8C|A Chain A, Crystal Structure Of Human Beta Secretase In Complex With
Nvp-Bxd552, Derived From A Co-Crystallization Experiment
pdb|4D8C|B Chain B, Crystal Structure Of Human Beta Secretase In Complex With
Nvp-Bxd552, Derived From A Co-Crystallization Experiment
pdb|4D8C|C Chain C, Crystal Structure Of Human Beta Secretase In Complex With
Nvp-Bxd552, Derived From A Co-Crystallization Experiment
Length = 402
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 32 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 91
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 92 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 149
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 150 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 207
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 208 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 251
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 252 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 305
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 306 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 361
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 362 DRARKRIGFAVSACHVHDE 380
>pdb|2ZJN|A Chain A, Crystal Structure Of The Human Bace1 Catalytic Domain In
Complex With
N-[1-(5-Chloro-2-Isopropoxy-3-Methoxy-Benzyl)-
Piperidin-4-Yl]-2-(2-Methyl-4-Sulfamoyl-Phenoxy)-
Acetamide
pdb|3H0B|A Chain A, Discovery Of Aminoheterocycles As A Novel Beta-Secretase
Inhibitor Class
pdb|3H0B|B Chain B, Discovery Of Aminoheterocycles As A Novel Beta-Secretase
Inhibitor Class
pdb|3H0B|C Chain C, Discovery Of Aminoheterocycles As A Novel Beta-Secretase
Inhibitor Class
Length = 405
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 36 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 95
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 96 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 153
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 154 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 211
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 212 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 255
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 256 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 309
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 310 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 365
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 366 DRARKRIGFAVSACHVHDE 384
>pdb|3VV6|A Chain A, Crystal Structure Of Beta Secetase In Complex With
2-Amino-3-Methyl-6- ((1s,
2r)-2-Phenylcyclopropyl)pyrimidin-4(3h)-One
pdb|3VV7|A Chain A, Crystal Structure Of Beta Secetase In Complex With
2-Amino-6-((1s,2r)-
2-(3'-Methoxybiphenyl-3-Yl)cyclopropyl)-3-
Methylpyrimidin-4(3h)-One
pdb|3VV8|A Chain A, Crystal Structure Of Beta Secetase In Complex With
2-Amino-3-Methyl-6-
((1s,
2r)-2-(3'-Methylbiphenyl-4-Yl)cyclopropyl)pyrimidin-
4(3h)-One
Length = 416
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 39 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 98
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 99 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 156
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 157 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 214
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 215 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 258
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 259 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 312
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 313 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 368
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 369 DRARKRIGFAVSACHVHDE 387
>pdb|3L58|A Chain A, Structure Of Bace Bound To Sch589432
pdb|3L58|B Chain B, Structure Of Bace Bound To Sch589432
pdb|3L59|A Chain A, Structure Of Bace Bound To Sch710413
pdb|3L59|B Chain B, Structure Of Bace Bound To Sch710413
pdb|3L5B|A Chain A, Structure Of Bace Bound To Sch713601
pdb|3L5B|B Chain B, Structure Of Bace Bound To Sch713601
pdb|3L5C|A Chain A, Structure Of Bace Bound To Sch723871
pdb|3L5C|B Chain B, Structure Of Bace Bound To Sch723871
pdb|3L5D|A Chain A, Structure Of Bace Bound To Sch723873
pdb|3L5D|B Chain B, Structure Of Bace Bound To Sch723873
pdb|3L5E|A Chain A, Structure Of Bace Bound To Sch736062
pdb|3L5E|B Chain B, Structure Of Bace Bound To Sch736062
pdb|3L5F|A Chain A, Structure Of Bace Bound To Sch736201
pdb|3L5F|B Chain B, Structure Of Bace Bound To Sch736201
pdb|4DJU|A Chain A, Structure Of Bace Bound To
2-Imino-3-Methyl-5,5-Diphenylimidazolidin- 4-One
pdb|4DJU|B Chain B, Structure Of Bace Bound To
2-Imino-3-Methyl-5,5-Diphenylimidazolidin- 4-One
pdb|4DJV|A Chain A, Structure Of Bace Bound To
2-Imino-5-(3'-Methoxy-[1,1'-Biphenyl]-3-
Yl)-3-Methyl-5-Phenylimidazolidin-4-One
pdb|4DJV|B Chain B, Structure Of Bace Bound To
2-Imino-5-(3'-Methoxy-[1,1'-Biphenyl]-3-
Yl)-3-Methyl-5-Phenylimidazolidin-4-One
pdb|4DJW|A Chain A, Structure Of Bace Bound To
2-Imino-3-Methyl-5-Phenyl-5-(3-(Pyridin-3-
Yl)phenyl)imidazolidin-4-One
pdb|4DJW|B Chain B, Structure Of Bace Bound To
2-Imino-3-Methyl-5-Phenyl-5-(3-(Pyridin-3-
Yl)phenyl)imidazolidin-4-One
pdb|4DJX|A Chain A, Structure Of Bace Bound To
5-(3-(5-Chloropyridin-3-Yl)phenyl)-5-
Cyclopropyl-2-Imino-3-Methylimidazolidin-4-One
pdb|4DJX|B Chain B, Structure Of Bace Bound To
5-(3-(5-Chloropyridin-3-Yl)phenyl)-5-
Cyclopropyl-2-Imino-3-Methylimidazolidin-4-One
pdb|4DJY|A Chain A, Structure Of Bace Bound To
(R)-5-Cyclopropyl-2-Imino-3-Methyl-5-(3-(5-
(Prop-1-Yn-1-Yl)pyridin-3-Yl)phenyl)imidazolidin-4-One
pdb|4DJY|B Chain B, Structure Of Bace Bound To
(R)-5-Cyclopropyl-2-Imino-3-Methyl-5-(3-(5-
(Prop-1-Yn-1-Yl)pyridin-3-Yl)phenyl)imidazolidin-4-One
pdb|4H1E|A Chain A, Structure Of Bace-1 Bound To
(7ar)-6-Benzoyl-7a-(4-(3-Cyanophenyl)
Thiophen-2-Yl)-3-Methyl-4-Oxohexahydro-1h-Pyrrolo[3,
4-D]pyrimidin- 2(3h)-Iminium
pdb|4H1E|B Chain B, Structure Of Bace-1 Bound To
(7ar)-6-Benzoyl-7a-(4-(3-Cyanophenyl)
Thiophen-2-Yl)-3-Methyl-4-Oxohexahydro-1h-Pyrrolo[3,
4-D]pyrimidin- 2(3h)-Iminium
pdb|4H3J|A Chain A, Structure Of Bace Bound To
2-Fluoro-5-(5-(2-Imino-3-Methyl-4-Oxo-6-
Phenyloctahydro-1h-Pyrrolo[3,
4-D]pyrimidin-7a-Yl)thiophen-2-Yl) Benzonitrile
pdb|4H3J|B Chain B, Structure Of Bace Bound To
2-Fluoro-5-(5-(2-Imino-3-Methyl-4-Oxo-6-
Phenyloctahydro-1h-Pyrrolo[3,
4-D]pyrimidin-7a-Yl)thiophen-2-Yl) Benzonitrile
pdb|4HA5|A Chain A, Structure Of Bace Bound To
(S)-3-(5-(2-Imino-1,4-Dimethyl-6-
Oxohexahydropyrimidin-4-Yl)thiophen-3-Yl)benzonitrile
pdb|4HA5|B Chain B, Structure Of Bace Bound To
(S)-3-(5-(2-Imino-1,4-Dimethyl-6-
Oxohexahydropyrimidin-4-Yl)thiophen-3-Yl)benzonitrile
pdb|4H3F|A Chain A, Structure Of Bace Bound To
3-(5-((7ar)-2-Imino-6-(6-Methoxypyridin-2-
Yl)-3-Methyl-4-Oxooctahydro-1h-Pyrrolo[3,
4-D]pyrimidin-7a-Yl) Thiophen-3-Yl)benzonitrile
pdb|4H3F|B Chain B, Structure Of Bace Bound To
3-(5-((7ar)-2-Imino-6-(6-Methoxypyridin-2-
Yl)-3-Methyl-4-Oxooctahydro-1h-Pyrrolo[3,
4-D]pyrimidin-7a-Yl) Thiophen-3-Yl)benzonitrile
pdb|4H3G|A Chain A, Structure Of Bace Bound To
2-((7ar)-7a-(4-(3-Cyanophenyl)thiophen-2-
Yl)-2-Imino-3-Methyl-4-Oxohexahydro-1h-Pyrrolo[3,
4-D]pyrimidin-6(2h)- Yl)nicotinonitrile
pdb|4H3G|B Chain B, Structure Of Bace Bound To
2-((7ar)-7a-(4-(3-Cyanophenyl)thiophen-2-
Yl)-2-Imino-3-Methyl-4-Oxohexahydro-1h-Pyrrolo[3,
4-D]pyrimidin-6(2h)- Yl)nicotinonitrile
pdb|4H3I|A Chain A, Structure Of Bace Bound To
3-(5-((7ar)-2-Imino-6-(3-Methoxypyridin-2-
Yl)-3-Methyl-4-Oxooctahydro-1h-Pyrrolo[3,
4-D]pyrimidin-7a-Yl) Thiophen-3-Yl)benzonitrile
pdb|4H3I|B Chain B, Structure Of Bace Bound To
3-(5-((7ar)-2-Imino-6-(3-Methoxypyridin-2-
Yl)-3-Methyl-4-Oxooctahydro-1h-Pyrrolo[3,
4-D]pyrimidin-7a-Yl) Thiophen-3-Yl)benzonitrile
Length = 414
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 37 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 96
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 97 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 154
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 155 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 212
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 213 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 256
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 257 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 310
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 311 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 366
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 367 DRARKRIGFAVSACHVHDE 385
>pdb|2FDP|A Chain A, Crystal Structure Of Beta-Secretase Complexed With An
Amino- Ethylene Inhibitor
pdb|2FDP|B Chain B, Crystal Structure Of Beta-Secretase Complexed With An
Amino- Ethylene Inhibitor
pdb|2FDP|C Chain C, Crystal Structure Of Beta-Secretase Complexed With An
Amino- Ethylene Inhibitor
pdb|3IXJ|A Chain A, Crystal Structure Of Beta-Secretase 1 In Complex With
Selective Beta-Secretase 1 Inhibitor
pdb|3IXJ|B Chain B, Crystal Structure Of Beta-Secretase 1 In Complex With
Selective Beta-Secretase 1 Inhibitor
pdb|3IXJ|C Chain C, Crystal Structure Of Beta-Secretase 1 In Complex With
Selective Beta-Secretase 1 Inhibitor
pdb|4GID|A Chain A, Structure Of Beta-Secretase Complexed With Inhibitor
pdb|4GID|B Chain B, Structure Of Beta-Secretase Complexed With Inhibitor
pdb|4GID|C Chain C, Structure Of Beta-Secretase Complexed With Inhibitor
pdb|4GID|D Chain D, Structure Of Beta-Secretase Complexed With Inhibitor
Length = 388
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/376 (22%), Positives = 145/376 (38%), Gaps = 57/376 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 19 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 78
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 79 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 136
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 137 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 194
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 195 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 238
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 239 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 292
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 293 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 348
Query: 395 DLINSRVGFAEVRCDI 410
D R+GFA C +
Sbjct: 349 DRARKRIGFAVSACHV 364
>pdb|4DPF|A Chain A, Bace-1 In Complex With A Hea-Macrocyclic Type Inhibitor
pdb|4DPI|A Chain A, Bace-1 In Complex With Hea-Macrocyclic Inhibitor, Mv078512
Length = 391
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/376 (22%), Positives = 145/376 (38%), Gaps = 57/376 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 22 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 81
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 82 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 139
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 140 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 197
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 198 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 241
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 242 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 295
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 296 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 351
Query: 395 DLINSRVGFAEVRCDI 410
D R+GFA C +
Sbjct: 352 DRARKRIGFAVSACHV 367
>pdb|1SGZ|A Chain A, Crystal Structure Of Unbound Beta-Secretase Catalytic
Domain.
pdb|1SGZ|B Chain B, Crystal Structure Of Unbound Beta-Secretase Catalytic
Domain.
pdb|1SGZ|C Chain C, Crystal Structure Of Unbound Beta-Secretase Catalytic
Domain.
pdb|1SGZ|D Chain D, Crystal Structure Of Unbound Beta-Secretase Catalytic
Domain.
pdb|1XS7|D Chain D, Crystal Structure Of A Cycloamide-Urethane-Derived Novel
Inhibitor Bound To Human Brain Memapsin 2
(Beta-Secretase).
pdb|1XN2|A Chain A, New Substrate Binding Pockets For Beta-Secretase.
pdb|1XN2|B Chain B, New Substrate Binding Pockets For Beta-Secretase.
pdb|1XN2|C Chain C, New Substrate Binding Pockets For Beta-Secretase.
pdb|1XN2|D Chain D, New Substrate Binding Pockets For Beta-Secretase.
pdb|1XN3|A Chain A, Crystal Structure Of Beta-Secretase Bound To A Long
Inhibitor With Additional Upstream Residues.
pdb|1XN3|B Chain B, Crystal Structure Of Beta-Secretase Bound To A Long
Inhibitor With Additional Upstream Residues.
pdb|1XN3|C Chain C, Crystal Structure Of Beta-Secretase Bound To A Long
Inhibitor With Additional Upstream Residues.
pdb|1XN3|D Chain D, Crystal Structure Of Beta-Secretase Bound To A Long
Inhibitor With Additional Upstream Residues.
pdb|2G94|A Chain A, Crystal Structure Of Beta-secretase Bound To A Potent And
Highly Selective Inhibitor.
pdb|2G94|B Chain B, Crystal Structure Of Beta-secretase Bound To A Potent And
Highly Selective Inhibitor.
pdb|2G94|C Chain C, Crystal Structure Of Beta-secretase Bound To A Potent And
Highly Selective Inhibitor.
pdb|2G94|D Chain D, Crystal Structure Of Beta-secretase Bound To A Potent And
Highly Selective Inhibitor.
pdb|2P4J|A Chain A, Crystal Structure Of Beta-Secretase Bond To An Inhibitor
With Isophthalamide Derivatives At P2-P3
pdb|2P4J|B Chain B, Crystal Structure Of Beta-Secretase Bond To An Inhibitor
With Isophthalamide Derivatives At P2-P3
pdb|2P4J|C Chain C, Crystal Structure Of Beta-Secretase Bond To An Inhibitor
With Isophthalamide Derivatives At P2-P3
pdb|2P4J|D Chain D, Crystal Structure Of Beta-Secretase Bond To An Inhibitor
With Isophthalamide Derivatives At P2-P3
pdb|2VKM|A Chain A, Crystal Structure Of Grl-8234 Bound To Bace
(Beta-Secretase)
pdb|2VKM|B Chain B, Crystal Structure Of Grl-8234 Bound To Bace
(Beta-Secretase)
pdb|2VKM|C Chain C, Crystal Structure Of Grl-8234 Bound To Bace
(Beta-Secretase)
pdb|2VKM|D Chain D, Crystal Structure Of Grl-8234 Bound To Bace
(Beta-Secretase)
pdb|3UFL|A Chain A, Discovery Of Pyrrolidine-Based B-Secretase Inhibitors:
Lead Advancement Through Conformational Design For
Maintenance Of Ligand Binding Efficiency
Length = 389
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/376 (22%), Positives = 145/376 (38%), Gaps = 57/376 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 20 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 79
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 80 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 137
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 138 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 195
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 196 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 239
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 240 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 293
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 294 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 349
Query: 395 DLINSRVGFAEVRCDI 410
D R+GFA C +
Sbjct: 350 DRARKRIGFAVSACHV 365
>pdb|3LPI|A Chain A, Structure Of Bace Bound To Sch745132
pdb|3LPI|B Chain B, Structure Of Bace Bound To Sch745132
pdb|3LPJ|A Chain A, Structure Of Bace Bound To Sch743641
pdb|3LPJ|B Chain B, Structure Of Bace Bound To Sch743641
pdb|3LPK|A Chain A, Structure Of Bace Bound To Sch747123
pdb|3LPK|B Chain B, Structure Of Bace Bound To Sch747123
pdb|3OHF|A Chain A, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With Bms-655295 Aka N~3~-((1s,2r)-1-
Benzyl-2-Hydroxy-3-((3-
Methoxybenzyl)amino)propyl)-N~1~,
N~1~-Dibutyl-1h-Indole-1,3- Dicarboxamide
pdb|3OHF|B Chain B, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With Bms-655295 Aka N~3~-((1s,2r)-1-
Benzyl-2-Hydroxy-3-((3-
Methoxybenzyl)amino)propyl)-N~1~,
N~1~-Dibutyl-1h-Indole-1,3- Dicarboxamide
pdb|3OHH|A Chain A, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With Bms-681889 Aka
N~1~-Butyl-5-Cyano- N~3~-((1s,2r)-1-(3,5-
Difluorobenzyl)-2-Hydroxy-3-((3-
Methoxybenzyl)amino)propyl)-N~1~- Methyl-1h-Indole-1,3-
Dicarboxamide
pdb|3OHH|B Chain B, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With Bms-681889 Aka
N~1~-Butyl-5-Cyano- N~3~-((1s,2r)-1-(3,5-
Difluorobenzyl)-2-Hydroxy-3-((3-
Methoxybenzyl)amino)propyl)-N~1~- Methyl-1h-Indole-1,3-
Dicarboxamide
pdb|3R2F|A Chain A, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With Bms-693391 Aka
(2s)-2-((3r)-3-Acetamido-3-Isobutyl-2-Oxo-1-
Pyrrolidinyl)-N-((1s,2r)-1-(3,
5-Difluorobenzyl)-2-Hydroxy-2-((2r,4r)-
4-Propoxy-2-Pyrrolidinyl)ethyl)-4-Phenylbutanamide
pdb|3R2F|B Chain B, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With Bms-693391 Aka
(2s)-2-((3r)-3-Acetamido-3-Isobutyl-2-Oxo-1-
Pyrrolidinyl)-N-((1s,2r)-1-(3,
5-Difluorobenzyl)-2-Hydroxy-2-((2r,4r)-
4-Propoxy-2-Pyrrolidinyl)ethyl)-4-Phenylbutanamide
pdb|3R2F|D Chain D, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With Bms-693391 Aka
(2s)-2-((3r)-3-Acetamido-3-Isobutyl-2-Oxo-1-
Pyrrolidinyl)-N-((1s,2r)-1-(3,
5-Difluorobenzyl)-2-Hydroxy-2-((2r,4r)-
4-Propoxy-2-Pyrrolidinyl)ethyl)-4-Phenylbutanamide
pdb|3R2F|E Chain E, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With Bms-693391 Aka
(2s)-2-((3r)-3-Acetamido-3-Isobutyl-2-Oxo-1-
Pyrrolidinyl)-N-((1s,2r)-1-(3,
5-Difluorobenzyl)-2-Hydroxy-2-((2r,4r)-
4-Propoxy-2-Pyrrolidinyl)ethyl)-4-Phenylbutanamide
pdb|3SKF|A Chain A, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With
(2s)-2-((3s)-3-(Acetylamino)-3-(Butan-2-Yl)-2-
Oxopyrrolidin-1-
Yl)-N-((2s,
3r)-3-Hydroxy-4-((3-Methoxybenzyl)amino)-1-Phenylbutan-
2- Yl)-4-Phenylbutanamide
pdb|3SKF|B Chain B, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With
(2s)-2-((3s)-3-(Acetylamino)-3-(Butan-2-Yl)-2-
Oxopyrrolidin-1-
Yl)-N-((2s,
3r)-3-Hydroxy-4-((3-Methoxybenzyl)amino)-1-Phenylbutan-
2- Yl)-4-Phenylbutanamide
pdb|3SKG|A Chain A, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With
(2s)-2-((3r)-3-Acetamido-3-Isobutyl-2-Oxo-1-
Pyrrolidinyl)-N-
((1s,2r)-1-(3,5-Difluorobenzyl)-2-Hydroxy-2-(1,2,3,
4-Tetrahydro-3- Isoquinolinyl)ethyl)-4-Phenylbutanamide
pdb|3SKG|B Chain B, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With
(2s)-2-((3r)-3-Acetamido-3-Isobutyl-2-Oxo-1-
Pyrrolidinyl)-N-
((1s,2r)-1-(3,5-Difluorobenzyl)-2-Hydroxy-2-(1,2,3,
4-Tetrahydro-3- Isoquinolinyl)ethyl)-4-Phenylbutanamide
pdb|3SKG|D Chain D, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With
(2s)-2-((3r)-3-Acetamido-3-Isobutyl-2-Oxo-1-
Pyrrolidinyl)-N-
((1s,2r)-1-(3,5-Difluorobenzyl)-2-Hydroxy-2-(1,2,3,
4-Tetrahydro-3- Isoquinolinyl)ethyl)-4-Phenylbutanamide
pdb|3SKG|E Chain E, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With
(2s)-2-((3r)-3-Acetamido-3-Isobutyl-2-Oxo-1-
Pyrrolidinyl)-N-
((1s,2r)-1-(3,5-Difluorobenzyl)-2-Hydroxy-2-(1,2,3,
4-Tetrahydro-3- Isoquinolinyl)ethyl)-4-Phenylbutanamide
pdb|4FSE|A Chain A, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With N-(N-(4-Amino-3,5-
Dichlorobenzyl)carbamimidoyl)-3-(4- Methoxyphenyl)-5-
Methyl-4-Isothiazolecarboxamide
pdb|4FSE|B Chain B, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With N-(N-(4-Amino-3,5-
Dichlorobenzyl)carbamimidoyl)-3-(4- Methoxyphenyl)-5-
Methyl-4-Isothiazolecarboxamide
pdb|4FSE|D Chain D, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With N-(N-(4-Amino-3,5-
Dichlorobenzyl)carbamimidoyl)-3-(4- Methoxyphenyl)-5-
Methyl-4-Isothiazolecarboxamide
pdb|4FSE|E Chain E, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Wt) Complex With N-(N-(4-Amino-3,5-
Dichlorobenzyl)carbamimidoyl)-3-(4- Methoxyphenyl)-5-
Methyl-4-Isothiazolecarboxamide
Length = 455
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 86/379 (22%), Positives = 146/379 (38%), Gaps = 63/379 (16%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 78 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 137
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGPARPG 165
++ T + +P P R + + + ++ EG L I ARP
Sbjct: 138 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEI---ARPD 192
Query: 166 -----FEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPL 219
F D+ N SL + GFP S ++ V S ++ D S + L
Sbjct: 193 DSLEPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSL 250
Query: 220 SYTPLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQ 277
YTP+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 251 WYTPIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTT 294
Query: 278 FTFLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLM 337
L +V+ A ++ K P+ + G +C+ +T ++ P++SL
Sbjct: 295 NLRLPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLY 348
Query: 338 FSGA------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLW 391
G +++ ++ L V ++ +D Y F S + VI + +
Sbjct: 349 LMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFY 404
Query: 392 VEFDLINSRVGFAEVRCDI 410
V FD R+GFA C +
Sbjct: 405 VVFDRARKRIGFAVSACHV 423
>pdb|3KMX|A Chain A, Structure Of Bace Bound To Sch346572
pdb|3KMX|B Chain B, Structure Of Bace Bound To Sch346572
pdb|3KMY|A Chain A, Structure Of Bace Bound To Sch12472
pdb|3KMY|B Chain B, Structure Of Bace Bound To Sch12472
pdb|3KN0|A Chain A, Structure Of Bace Bound To Sch708236
pdb|3KN0|B Chain B, Structure Of Bace Bound To Sch708236
pdb|3LNK|A Chain A, Structure Of Bace Bound To Sch743813
pdb|3LNK|B Chain B, Structure Of Bace Bound To Sch743813
pdb|4FRS|A Chain A, Structure Of Bace In Complex With
(S)-4-(3-Chloro-5-(5-(Prop-1-Yn-1-
Yl)pyridin-3-Yl)thiophen-2-Yl)-1,
4-Dimethyl-6-Oxotetrahydropyrimidin- 2(1h)-Iminium
pdb|4FRS|B Chain B, Structure Of Bace In Complex With
(S)-4-(3-Chloro-5-(5-(Prop-1-Yn-1-
Yl)pyridin-3-Yl)thiophen-2-Yl)-1,
4-Dimethyl-6-Oxotetrahydropyrimidin- 2(1h)-Iminium
Length = 395
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 25 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 84
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 85 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 142
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 143 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 200
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 201 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 244
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 245 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 298
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 299 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 354
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 355 DRARKRIGFAVSACHVHDE 373
>pdb|2ZHR|A Chain A, Crystal Structure Of Bace1 In Complex With Om99-2 At Ph
5.0
pdb|2ZHR|B Chain B, Crystal Structure Of Bace1 In Complex With Om99-2 At Ph
5.0
pdb|2ZHS|A Chain A, Crystal Structure Of Bace1 At Ph 4.0
pdb|2ZHT|A Chain A, Crystal Structure Of Bace1 At Ph 4.5
pdb|2ZHU|A Chain A, Crystal Structure Of Bace1 At Ph 5.0
pdb|2ZHV|A Chain A, Crystal Structure Of Bace1 At Ph 7.0
Length = 411
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 34 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 93
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 94 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 151
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 152 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 209
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 210 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 253
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 254 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 307
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 308 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 363
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 364 DRARKRIGFAVSACHVHDE 382
>pdb|3U6A|A Chain A, Rational Design And Synthesis Of Aminopiperazinones As
Beta Secretase (Bace) Inhibitors
pdb|3U6A|B Chain B, Rational Design And Synthesis Of Aminopiperazinones As
Beta Secretase (Bace) Inhibitors
pdb|3U6A|C Chain C, Rational Design And Synthesis Of Aminopiperazinones As
Beta Secretase (Bace) Inhibitors
Length = 390
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/376 (22%), Positives = 145/376 (38%), Gaps = 57/376 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 21 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 80
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 81 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 138
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 139 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 196
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 197 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 240
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 241 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 294
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 295 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 350
Query: 395 DLINSRVGFAEVRCDI 410
D R+GFA C +
Sbjct: 351 DRARKRIGFAVSACHV 366
>pdb|2OF0|A Chain A, X-Ray Crystal Structure Of Beta Secretase Complexed With
Compound 5
pdb|2OHK|A Chain A, X-Ray Crystal Structure Of Beta Secretase Complexed With
1- Amino-Isoquinoline
pdb|2OHL|A Chain A, X-Ray Crystal Structure Of Beta Secretase Complexed With
2- Aminoquinoline
pdb|2OHM|A Chain A, X-Ray Crystal Structure Of Beta Secretase Complexed With
N~3~-Benzylpyridine-2,3-Diamine
pdb|2OHN|A Chain A, X-Ray Crystal Structure Of Beta Secretase Complexed With
4- (4-Fluorobenzyl)piperidine
pdb|2OHQ|A Chain A, X-Ray Crystal Structure Of Beta Secretase Complexed With
Compound 4
pdb|2OHR|A Chain A, X-Ray Crystal Structure Of Beta Secretase Complexed With
Compound 6a
pdb|2OHS|A Chain A, X-Ray Crystal Structure Of Beta Secretase Complexed With
Compound 6b
pdb|2OHT|A Chain A, X-Ray Crystal Structure Of Beta Secretase Complexed With
Compound 7
pdb|2OHU|A Chain A, X-Ray Crystal Structure Of Beta Secretase Complexed With
Compound 8b
pdb|2OHP|A Chain A, X-ray Crystal Structure Of Beta Secretase Complexed With
Compound 3
Length = 402
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 33 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 92
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 93 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 150
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 151 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 208
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 209 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 252
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 253 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 306
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 307 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 362
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 363 DRARKRIGFAVSACHVHDE 381
>pdb|3TPR|A Chain A, Crystal Structure Of Bace1 Complexed With An Inhibitor
pdb|3UQR|A Chain A, Crystal Structure Of Bace1 With Its Inhibitor
pdb|3UQR|B Chain B, Crystal Structure Of Bace1 With Its Inhibitor
pdb|3UQR|C Chain C, Crystal Structure Of Bace1 With Its Inhibitor
Length = 433
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 86/382 (22%), Positives = 147/382 (38%), Gaps = 63/382 (16%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 56 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 115
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGPARPG 165
++ T + +P P R + + + ++ EG L I ARP
Sbjct: 116 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEI---ARPD 170
Query: 166 -----FEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPL 219
F D+ N SL + GFP S ++ V S ++ D S + L
Sbjct: 171 DSLEPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSL 228
Query: 220 SYTPLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQ 277
YTP+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 229 WYTPIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTT 272
Query: 278 FTFLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLM 337
L +V+ A ++ K P+ + G +C+ +T ++ P++SL
Sbjct: 273 NLRLPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLY 326
Query: 338 FSGA------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLW 391
G +++ ++ L V ++ +D Y F S + VI + +
Sbjct: 327 LMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFY 382
Query: 392 VEFDLINSRVGFAEVRCDIASK 413
V FD R+GFA C + +
Sbjct: 383 VVFDRARKRIGFAVSACHVHDE 404
>pdb|3CKP|A Chain A, Crystal Structure Of Bace-1 In Complex With Inhibitor
pdb|3CKP|B Chain B, Crystal Structure Of Bace-1 In Complex With Inhibitor
pdb|3CKP|C Chain C, Crystal Structure Of Bace-1 In Complex With Inhibitor
pdb|3CKR|A Chain A, Crystal Structure Of Bace-1 In Complex With Inhibitor
pdb|3CKR|B Chain B, Crystal Structure Of Bace-1 In Complex With Inhibitor
pdb|3CKR|C Chain C, Crystal Structure Of Bace-1 In Complex With Inhibitor
pdb|4FSL|A Chain A, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Db-Mut) Complex With N-(N-(4-
Acetamido-3-Chloro-5-Methylbenzyl) Carbamimidoyl)-3-(4-
Methoxyphenyl)-5-Methyl-4-Isothiazolecarboxamide
pdb|4FSL|B Chain B, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Db-Mut) Complex With N-(N-(4-
Acetamido-3-Chloro-5-Methylbenzyl) Carbamimidoyl)-3-(4-
Methoxyphenyl)-5-Methyl-4-Isothiazolecarboxamide
pdb|4FSL|D Chain D, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Db-Mut) Complex With N-(N-(4-
Acetamido-3-Chloro-5-Methylbenzyl) Carbamimidoyl)-3-(4-
Methoxyphenyl)-5-Methyl-4-Isothiazolecarboxamide
pdb|4FSL|E Chain E, Crystal Structure Of Beta-Site App-Cleaving Enzyme 1
(Bace-Db-Mut) Complex With N-(N-(4-
Acetamido-3-Chloro-5-Methylbenzyl) Carbamimidoyl)-3-(4-
Methoxyphenyl)-5-Methyl-4-Isothiazolecarboxamide
Length = 412
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 35 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 94
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 95 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 152
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 153 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 210
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 211 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 254
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 255 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 308
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 309 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 364
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 365 DRARKRIGFAVSACHVHDE 383
>pdb|2HIZ|A Chain A, Crystal Structure Of Human Beta-Secretase (Bace) In The
Presence Of An Inhibitor
pdb|2HIZ|B Chain B, Crystal Structure Of Human Beta-Secretase (Bace) In The
Presence Of An Inhibitor
pdb|2HIZ|C Chain C, Crystal Structure Of Human Beta-Secretase (Bace) In The
Presence Of An Inhibitor
pdb|2P83|A Chain A, Potent And Selective Isophthalamide S2 Hydroxyethylamine
Inhibitor Of Bace1
pdb|2P83|B Chain B, Potent And Selective Isophthalamide S2 Hydroxyethylamine
Inhibitor Of Bace1
pdb|2P83|C Chain C, Potent And Selective Isophthalamide S2 Hydroxyethylamine
Inhibitor Of Bace1
Length = 455
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 86/379 (22%), Positives = 146/379 (38%), Gaps = 63/379 (16%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 79 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 138
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGPARPG 165
++ T + +P P R + + + ++ EG L I ARP
Sbjct: 139 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEI---ARPD 193
Query: 166 -----FEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPL 219
F D+ N SL + GFP S ++ V S ++ D S + L
Sbjct: 194 DSLEPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSL 251
Query: 220 SYTPLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQ 277
YTP+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 252 WYTPIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTT 295
Query: 278 FTFLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLM 337
L +V+ A ++ K P+ + G +C+ +T ++ P++SL
Sbjct: 296 NLRLPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLY 349
Query: 338 FSGA------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLW 391
G +++ ++ L V ++ +D Y F S + VI + +
Sbjct: 350 LMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFY 405
Query: 392 VEFDLINSRVGFAEVRCDI 410
V FD R+GFA C +
Sbjct: 406 VVFDRARKRIGFAVSACHV 424
>pdb|3UDH|A Chain A, Crystal Structure Of Bace With Compound 1
pdb|3UDJ|A Chain A, Crystal Structure Of Bace With Compound 5
pdb|3UDK|A Chain A, Crystal Structure Of Bace With Compound 6
pdb|3UDM|A Chain A, Crystal Structure Of Bace With Compound 8
pdb|3UDN|A Chain A, Crystal Structure Of Bace With Compound 9
pdb|3UDP|A Chain A, Crystal Structure Of Bace With Compound 12
pdb|3UDQ|A Chain A, Crystal Structure Of Bace With Compound 13
pdb|3UDR|A Chain A, Crystal Structure Of Bace With Compound 14
pdb|3UDY|A Chain A, Crystal Structure Of Bace With Compound 11
pdb|4FM7|A Chain A, Crystal Structure Of Bace With Compound 14g
pdb|4FM8|A Chain A, Crystal Structure Of Bace With Compound 12a
Length = 404
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/376 (22%), Positives = 145/376 (38%), Gaps = 57/376 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 20 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 79
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 80 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 137
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 138 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 195
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 196 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 239
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 240 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 293
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 294 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 349
Query: 395 DLINSRVGFAEVRCDI 410
D R+GFA C +
Sbjct: 350 DRARKRIGFAVSACHV 365
>pdb|2QU2|A Chain A, Bace1 With Compound 1
pdb|2QU3|A Chain A, Bace1 With Compound 2
pdb|2ZDZ|A Chain A, X-Ray Structure Of Bace-1 In Complex With Compound 3.B.10
pdb|2ZE1|A Chain A, X-Ray Structure Of Bace-1 In Complex With Compound 6g
pdb|3IGB|A Chain A, Bace-1 With Compound 3
pdb|3IN3|A Chain A, Bace1 With Compound 30
pdb|3IN4|A Chain A, Bace1 With Compound 38
pdb|3IND|A Chain A, Bace1 With The Aminohydantoin Compound 29
pdb|3INE|A Chain A, Bace1 With The Aminohydantoin Compound S-34
pdb|3INF|A Chain A, Bace1 With The Aminohydantoin Compound 37
pdb|3INH|A Chain A, Bace1 With The Aminohydantoin Compound R-58
pdb|3LHG|A Chain A, Bace1 In Complex With The Aminohydantoin Compound 4g
pdb|3L38|A Chain A, Bace1 In Complex With The Aminopyridine Compound 44
pdb|3L3A|A Chain A, Bace-1 With The Aminopyridine Compound 32
pdb|3OOZ|A Chain A, Bace1 In Complex With The Aminohydantoin Compound 102
pdb|3S7L|A Chain A, Pyrazolyl And Thienyl Aminohydantoins As Potent Bace1
Inhibitors
pdb|3S7M|A Chain A, Pyrazolyl And Thienyl Aminohydantoins As Potent Bace1
Inhibitors
Length = 415
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 32 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 91
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 92 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 149
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 150 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 207
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 208 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 251
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 252 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 305
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 306 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 361
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 362 DRARKRIGFAVSACHVHDE 380
>pdb|2VA5|A Chain A, X-Ray Crystal Structure Of Beta Secretase Complexed With
Compound 8c
pdb|2VA6|A Chain A, X-Ray Crystal Structure Of Beta Secretase Complexed With
Compound 24
pdb|2VA7|A Chain A, X-Ray Crystal Structure Of Beta Secretase Complexed With
Compound 27
Length = 455
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 86/379 (22%), Positives = 146/379 (38%), Gaps = 63/379 (16%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 79 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 138
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGPARPG 165
++ T + +P P R + + + ++ EG L I ARP
Sbjct: 139 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEI---ARPD 193
Query: 166 -----FEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPL 219
F D+ N SL + GFP S ++ V S ++ D S + L
Sbjct: 194 DSLEPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSL 251
Query: 220 SYTPLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQ 277
YTP+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 252 WYTPIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTT 295
Query: 278 FTFLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLM 337
L +V+ A ++ K P+ + G +C+ +T ++ P++SL
Sbjct: 296 NLRLPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLY 349
Query: 338 FSGA------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLW 391
G +++ ++ L V ++ +D Y F S + VI + +
Sbjct: 350 LMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFY 405
Query: 392 VEFDLINSRVGFAEVRCDI 410
V FD R+GFA C +
Sbjct: 406 VVFDRARKRIGFAVSACHV 424
>pdb|1FKN|A Chain A, Structure Of Beta-Secretase Complexed With Inhibitor
pdb|1FKN|B Chain B, Structure Of Beta-Secretase Complexed With Inhibitor
pdb|1M4H|A Chain A, Crystal Structure Of Beta-Secretase Complexed With
Inhibitor Om00-3
pdb|1M4H|B Chain B, Crystal Structure Of Beta-Secretase Complexed With
Inhibitor Om00-3
Length = 391
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/376 (22%), Positives = 145/376 (38%), Gaps = 57/376 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 22 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 81
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 82 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 139
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 140 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 197
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 198 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 241
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 242 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 295
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 296 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 351
Query: 395 DLINSRVGFAEVRCDI 410
D R+GFA C +
Sbjct: 352 DRARKRIGFAVSACHV 367
>pdb|4B1D|A Chain A, New Aminoimidazoles As Bace-1 Inhibitors: From Rational
Design To Ab-Lowering In Brain
pdb|4B1E|A Chain A, New Aminoimidazoles As Bace-1 Inhibitors: From Rational
Design To Ab-Lowering In Brain
Length = 388
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/376 (22%), Positives = 145/376 (38%), Gaps = 57/376 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 20 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 79
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 80 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 137
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 138 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 195
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 196 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 239
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 240 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 293
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 294 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 349
Query: 395 DLINSRVGFAEVRCDI 410
D R+GFA C +
Sbjct: 350 DRARKRIGFAVSACHV 365
>pdb|3CIB|A Chain A, Structure Of Bace Bound To Sch727596
pdb|3CIB|B Chain B, Structure Of Bace Bound To Sch727596
pdb|3CIC|A Chain A, Structure Of Bace Bound To Sch709583
pdb|3CIC|B Chain B, Structure Of Bace Bound To Sch709583
pdb|3CID|A Chain A, Structure Of Bace Bound To Sch726222
pdb|3CID|B Chain B, Structure Of Bace Bound To Sch726222
pdb|4FS4|A Chain A, Structure Of Bace Bound To
(S)-4-(3'-Methoxy-[1,1'-Biphenyl]-3-Yl)-1,
4-Dimethyl-6-Oxotetrahydropyrimidin-2(1h)-Iminium
pdb|4FS4|B Chain B, Structure Of Bace Bound To
(S)-4-(3'-Methoxy-[1,1'-Biphenyl]-3-Yl)-1,
4-Dimethyl-6-Oxotetrahydropyrimidin-2(1h)-Iminium
Length = 390
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/376 (22%), Positives = 145/376 (38%), Gaps = 57/376 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 20 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 79
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 80 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 137
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 138 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 195
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 196 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 239
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 240 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 293
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 294 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 349
Query: 395 DLINSRVGFAEVRCDI 410
D R+GFA C +
Sbjct: 350 DRARKRIGFAVSACHV 365
>pdb|2WJO|A Chain A, Human Bace (Beta Secretase) In Complex With
Cyclohexanecarboxylic Acid (2-(2-Am Ino-6-Phenoxy-4h-
Quinazolin-3-Yl)-2-Cyclohexyl-Ethyl)-Amide
Length = 412
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 20 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 79
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 80 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 137
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 138 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 195
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 196 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 239
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 240 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 293
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 294 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 349
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 350 DRARKRIGFAVSACHVHDE 368
>pdb|2QK5|A Chain A, Structure Of Bace1 Bound To Sch626485
pdb|2QK5|B Chain B, Structure Of Bace1 Bound To Sch626485
pdb|2QMD|A Chain A, Structure Of Bace Bound To Sch722924
pdb|2QMD|B Chain B, Structure Of Bace Bound To Sch722924
pdb|2QMF|A Chain A, Structure Of Bace Bound To Sch735310
pdb|2QMF|B Chain B, Structure Of Bace Bound To Sch735310
pdb|2QP8|A Chain A, Structure Of Bace Bound To Sch734723
pdb|2QP8|B Chain B, Structure Of Bace Bound To Sch734723
pdb|2QMG|A Chain A, Structure Of Bace Bound To Sch745966
pdb|2QMG|B Chain B, Structure Of Bace Bound To Sch745966
Length = 395
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 84/376 (22%), Positives = 145/376 (38%), Gaps = 57/376 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 25 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 84
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 85 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 142
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 143 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 200
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 201 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 244
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 245 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 298
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 299 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 354
Query: 395 DLINSRVGFAEVRCDI 410
D R+GFA C +
Sbjct: 355 DRARKRIGFAVSACHV 370
>pdb|3R1G|B Chain B, Structure Basis Of Allosteric Inhibition Of Bace1 By An
Exosite- Binding Antibody
Length = 402
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 86/379 (22%), Positives = 146/379 (38%), Gaps = 63/379 (16%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 23 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 82
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGPARPG 165
++ T + +P P R + + + ++ EG L I ARP
Sbjct: 83 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEI---ARPD 137
Query: 166 -----FEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPL 219
F D+ N SL + GFP S ++ V S ++ D S + L
Sbjct: 138 DSLEPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSL 195
Query: 220 SYTPLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQ 277
YTP+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 196 WYTPIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTT 239
Query: 278 FTFLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLM 337
L +V+ A ++ K P+ + G +C+ +T ++ P++SL
Sbjct: 240 NLRLPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLY 293
Query: 338 FSGA------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLW 391
G +++ ++ L V ++ +D Y F S + VI + +
Sbjct: 294 LMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFY 349
Query: 392 VEFDLINSRVGFAEVRCDI 410
V FD R+GFA C +
Sbjct: 350 VVFDRARKRIGFAVSACHV 368
>pdb|2ZJK|A Chain A, Crystal Structure Of The Human Bace1 Catalytic Domain In
Complex With 4-(4-Fluoro-Benzyl)-Piperazine-2-Carboxylic
Acid(3-Mercapto-Propyl)-Amide
pdb|2ZJK|B Chain B, Crystal Structure Of The Human Bace1 Catalytic Domain In
Complex With 4-(4-Fluoro-Benzyl)-Piperazine-2-Carboxylic
Acid(3-Mercapto-Propyl)-Amide
pdb|2ZJK|C Chain C, Crystal Structure Of The Human Bace1 Catalytic Domain In
Complex With 4-(4-Fluoro-Benzyl)-Piperazine-2-Carboxylic
Acid(3-Mercapto-Propyl)-Amide
Length = 405
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 36 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYCQGK 95
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 96 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 153
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 154 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 211
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 212 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 255
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 256 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 309
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 310 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 365
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 366 DRARKRIGFAVSACHVHDE 384
>pdb|3BRA|A Chain A, Bace-1 Complexed With Compound 1
pdb|3BUF|A Chain A, Bace-1 Complexed With Compound 2
pdb|3BUG|A Chain A, Bace-1 Complexed With Compound 3
pdb|3BUH|A Chain A, Bace-1 Complexed With Compound 4
Length = 409
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 145/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 32 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 91
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 92 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 149
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 150 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 207
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 208 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 251
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A + K P+ + G +C+ +T ++ P++SL G
Sbjct: 252 LPKKVFEAA----VASIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 305
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 306 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 361
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 362 DRARKRIGFAVSACHVHDE 380
>pdb|2ZJJ|A Chain A, Crystal Structure Of The Human Bace1 Catalytic Domain In
Complex With 4-(4-Fluoro-Benzyl)-Piperazine-2-Carboxylic
Acid (2-Mercapto-Ethyl)- Amide
Length = 405
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 83/379 (21%), Positives = 146/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P +
Sbjct: 36 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGA 95
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 96 WAGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 153
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 154 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 211
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSG
Sbjct: 212 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGCTNLR 255
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 256 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 309
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S + VI + +V F
Sbjct: 310 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVVF 365
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 366 DRARKRIGFAVSACHVHDE 384
>pdb|2ZJH|A Chain A, Crystal Structure Of The Human Bace1 Catalytic Domain In
Complex With
N-(1-Benzyl-Piperidin-4-Yl)-4-Mercapto-Butyramide
pdb|2ZJL|A Chain A, Crystal Structure Of The Human Bace1 Catalytic Domain In
Complex With
N-[1-(5-Bromo-2,3-Dimethoxy-Benzyl)-Piperidin-
4-Yl]-4-Mercapto-Butyramide
Length = 405
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 84/379 (22%), Positives = 145/379 (38%), Gaps = 57/379 (15%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 36 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 95
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLT--------YADLTSTEGNLATETILIGGP--AR 163
++ T + +P P R + + + ++ EG L I P +
Sbjct: 96 WEGELGTDLVSIPHG--PNVTVRANIAAITESDKFFINGSNWEGILGLAYAEIARPDDSL 153
Query: 164 PGFEDARTTGLMGMNRGSLSFITQMGFP-KFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
F D+ N SL + GFP S ++ V S ++ D S + L YT
Sbjct: 154 EPFFDSLVKQTHVPNLFSLQ-LCGAGFPLNQSEVLASVGGSMIIGGIDHSL-YTGSLWYT 211
Query: 223 PLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTF 280
P+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 212 PIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNLR 255
Query: 281 LLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFSG 340
L +V+ A ++ K P+ + G +C+ +T ++ P++SL G
Sbjct: 256 LPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLMG 309
Query: 341 A------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVEF 394
+++ ++ L V ++ +D Y F S VI + +V F
Sbjct: 310 EVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTCMGAVI----MEGFYVVF 365
Query: 395 DLINSRVGFAEVRCDIASK 413
D R+GFA C + +
Sbjct: 366 DRARKRIGFAVSACHVHDE 384
>pdb|3HD8|A Chain A, Crystal Structure Of The Triticum Aestivum Xylanase
Inhibitor-Iia In Complex With Bacillus Subtilis Xylanase
pdb|3HD8|C Chain C, Crystal Structure Of The Triticum Aestivum Xylanase
Inhibitor-Iia In Complex With Bacillus Subtilis Xylanase
Length = 389
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 80/370 (21%), Positives = 144/370 (38%), Gaps = 63/370 (17%)
Query: 73 VTMVLDTGSELSWLHCKKTVSFNSIF--NP--LLSSSYSPVPCNSPTCKIKTQDLPVPA- 127
++VLD L W C+ S I +P LL+++Y C +P+C D P A
Sbjct: 26 ASLVLDVAGLLVWSTCEGGQSPAEIACSSPTCLLANAYPAPGCPAPSCGSDRHDKPCTAY 85
Query: 128 -SCDPKGLCRVTL---TYADLTSTEGN-----LATETILIGGPARPGFEDAR-TTGLMGM 177
S G C T +T+GN + + P++ R +TG+ G+
Sbjct: 86 PSNPVTGACAAGSLFHTRFAANTTDGNKPVSEVNVRVLAACAPSKLLASLPRGSTGVAGL 145
Query: 178 NRGSLSFITQMGFP-----KFSYCISGVDSSGVLLFGDASFAW---LKPLSYTPLV-RIS 228
L+ +Q+ KF C+ GV +FG W + + YTPLV +
Sbjct: 146 AGSGLALPSQVASAQKVPNKFLLCLP-TGGPGVAIFGGGPLPWPQFTQSMDYTPLVAKGG 204
Query: 229 KPLPYFDRVAYSVQLEGIKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFTFLLGEVYSA 288
P Y + V+ + + + L G M+ + + L +VY
Sbjct: 205 SPAHYISARSIKVENTRVPISERAL------------ATGGVMLSTRLPYVLLRRDVYRP 252
Query: 289 LKNEFIQQTKGILRVFDDPNFVFQGA-----MDLCYLIESTG--PSLPRLPIVSL-MFSG 340
L + F TK + + V + +LCY ++ G P +P V L + G
Sbjct: 253 LVDAF---TKALAAQPANGAPVARAVKPVAPFELCYDTKTLGNNPGGYWVPNVLLELDGG 309
Query: 341 AEMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIE-------AFVIGHHHQQNLWVE 393
++ +++G+ + V + C F ++ G++ A ++G ++ ++
Sbjct: 310 SDWAMTGKNSMVDV------KPGTACVAF--VEMKGVDAGDGSAPAVILGGAQMEDFVLD 361
Query: 394 FDLINSRVGF 403
FD+ R+GF
Sbjct: 362 FDMEKKRLGF 371
>pdb|1TZS|A Chain A, Crystal Structure Of An Activation Intermediate Of
Cathepsin E
Length = 351
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 59/236 (25%), Positives = 92/236 (38%), Gaps = 54/236 (22%)
Query: 63 SLKLGSPPQDVTMVLDTGSELSW---LHCKK-TVSFNSIFNPLLSSSYSPVPCNSPTCKI 118
++ +GSPPQ+ T++ DTGS W ++C +S F P SS+YS P S + +
Sbjct: 28 TISIGSPPQNFTVIFDTGSSNLWVPSVYCTSPACKTHSRFQPSQSSTYSQ-PGQSFSIQY 86
Query: 119 KTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGGPARPG--FEDARTTGLMG 176
T L + AD S EG PG F DA G++G
Sbjct: 87 GTGSLS-------------GIIGADQVSVEGLTVVGQQFGESVTEPGQTFVDAEFDGILG 133
Query: 177 MNRGSLS-------FITQMG-----FPKFSYCISGVDSSGV---LLFGDASFAWLK-PLS 220
+ SL+ F M P FS +S G L+FG + L+
Sbjct: 134 LGYPSLAVGGVTPVFDNMMAQNLVDLPMFSVYMSSNPEGGAGSELIFGGYDHSHFSGSLN 193
Query: 221 YTPLVRISKPLPYFDRVAYSVQLEGIKVGSKVLNLPKSVFIPDHTGAGQTMVDSGT 276
+ P+ + + + + L+ I+VG V+ + Q +VD+GT
Sbjct: 194 WVPVTK---------QAYWQIALDNIQVGGTVMFCSEGC---------QAIVDTGT 231
>pdb|4B1C|A Chain A, New Aminoimidazoles As Bace-1 Inhibitors: From Rational
Design To Ab-Lowering In Brain
Length = 375
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 78/377 (20%), Positives = 139/377 (36%), Gaps = 73/377 (19%)
Query: 62 VSLKLGSPPQDVTMVLDTGSE--------LSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
V + +GSPPQ + +++DTGS +LH +S + L Y P
Sbjct: 22 VEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK 81
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGGPARPGFEDARTTG 173
++ T + +P P R + A +T ++ I G + G
Sbjct: 82 WEGELGTDLVSIPHG--PNVTVRANI--AAITESD------KFFING--------SNWEG 123
Query: 174 LMGMNRGSL------------SFITQMGFPKFSYCISGVDSSGVLLFGDASFAWLKPLSY 221
++G+ + S + Q P S ++ D S + L Y
Sbjct: 124 ILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGGGSMIIGGIDHSL-YTGSLWY 182
Query: 222 TPLVRISKPLPYFDRVAYSVQLEG--IKVGSKVLNLPKSVFIPDHTGAGQTMVDSGTQFT 279
TP+ R Y++ + V++ G +K+ K N KS+ VDSGT
Sbjct: 183 TPIRREW----YYEVIIVRVEINGQDLKMDCKEYNYDKSI------------VDSGTTNL 226
Query: 280 FLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLPRLPIVSLMFS 339
L +V+ A ++ K P+ + G +C+ +T ++ P++SL
Sbjct: 227 RLPKKVFEAA----VKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI--FPVISLYLM 280
Query: 340 GA------EMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQNLWVE 393
G +++ ++ L V ++ +D Y F S + VI + +V
Sbjct: 281 GEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAISQSSTGTVMGAVI----MEGFYVV 336
Query: 394 FDLINSRVGFAEVRCDI 410
FD R+GFA C +
Sbjct: 337 FDRARKRIGFAVSACHV 353
>pdb|2B42|A Chain A, Crystal Structure Of The Triticum Xylanse Inhibitor-I In
Complex With Bacillus Subtilis Xylanase
Length = 381
Score = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 76/385 (19%), Positives = 139/385 (36%), Gaps = 87/385 (22%)
Query: 73 VTMVLDTGSELSWLHCKKTVSFNSIFNPLLSSSYSPVPCNSPTCKIKTQDLPVPASCDP- 131
++VLD L W CK + +PC+SPTC + P P P
Sbjct: 24 ASLVLDVAGPLVWSTCKG------------GQPPAEIPCSSPTCLLANA-YPAPGCPAPS 70
Query: 132 ------------------KGLCRV-TLTYADLTS--TEGNLATETILIG-----GPARPG 165
G C +L++ + T+G+ + +G P++
Sbjct: 71 CGSDKHDKPCTAYPYNPVSGACAAGSLSHTRFVANTTDGSKPVSKVNVGVLAACAPSKLL 130
Query: 166 FEDAR-TTGLMGMNRGSLSFITQMGFP-----KFSYCISGVDSSGVLLFGDASFAW---L 216
R +TG+ G+ L+ Q+ +F C+ GV +FG W
Sbjct: 131 ASLPRGSTGVAGLANSGLALPAQVASAQKVANRFLLCLP-TGGPGVAIFGGGPVPWPQFT 189
Query: 217 KPLSYTPLVRISKPLPYFDRVAYSVQLEGIKVGSKVLNLPKSVFIPDHTGAGQTMVDSGT 276
+ + YTPLV A+ + I VG + +P+ G M+ +
Sbjct: 190 QSMPYTPLVTKG------GSPAHYISARSIVVGDTRVPVPEGALA-----TGGVMLSTRL 238
Query: 277 QFTFLLGEVYSALKNEFI-----QQTKGILRVFDDPNFVFQGAMDLCYLIESTGPSLP-- 329
+ L +VY L + F Q G G +CY ++ G +L
Sbjct: 239 PYVLLRPDVYRPLMDAFTKALAAQHANGAPVARAVVAVAPFG---VCYDTKTLGNNLGGY 295
Query: 330 RLPIVSL-MFSGAEMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIE-------AFV 381
+P V L + G++ +++G+ + V + C F ++ G+ A +
Sbjct: 296 AVPNVQLGLDGGSDWTMTGKNSMVDV------KQGTACVAF--VEMKGVAAGDGRAPAVI 347
Query: 382 IGHHHQQNLWVEFDLINSRVGFAEV 406
+G ++ ++FD+ R+GF+ +
Sbjct: 348 LGGAQMEDFVLDFDMEKKRLGFSRL 372
>pdb|1J71|A Chain A, Structure Of The Extracellular Aspartic Proteinase From
Candida Tropicalis Yeast
Length = 334
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 56/130 (43%), Gaps = 27/130 (20%)
Query: 59 SLTVSLKLGSPPQDVTMVLDTGSELSWL-----HCKKTVSFNSIFNPLLSSSYSPVPCNS 113
S + +GS Q T+V+DTGS W+ C+ V+++ N + P +S
Sbjct: 13 SYAADIVVGSNQQKQTVVIDTGSSDLWVVDTDAECQ--VTYSGQTNNFCKQEGTFDPSSS 70
Query: 114 PTCKIKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGGPA--RPGFEDART 171
+ + QD + Y DLTS++G+ +T+ GG + F D T
Sbjct: 71 SSAQNLNQDFSIE--------------YGDLTSSQGSFYKDTVGFGGISIKNQQFADVTT 116
Query: 172 T----GLMGM 177
T G+MG+
Sbjct: 117 TSVDQGIMGI 126
>pdb|2EWY|A Chain A, Crystal Structure Of Human Bace2 In Complex With A
Hydroxyethylenamine Transition-State Inhibitor
pdb|2EWY|B Chain B, Crystal Structure Of Human Bace2 In Complex With A
Hydroxyethylenamine Transition-State Inhibitor
pdb|2EWY|C Chain C, Crystal Structure Of Human Bace2 In Complex With A
Hydroxyethylenamine Transition-State Inhibitor
pdb|2EWY|D Chain D, Crystal Structure Of Human Bace2 In Complex With A
Hydroxyethylenamine Transition-State Inhibitor
Length = 383
Score = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 89/385 (23%), Positives = 148/385 (38%), Gaps = 83/385 (21%)
Query: 62 VSLKLGSPPQDVTMVLDTGSELSWLHCKKTVSFNSIFNPLLSSSYSPVPCNSPTCKIKTQ 121
+ + +G+PPQ + +++DTGS + ++ F+ SS+Y + K
Sbjct: 17 LEMLIGTPPQKLQILVDTGSSNFAVAGTPHSYIDTYFDTERSSTY----------RSKGF 66
Query: 122 DLPVPASCDPK----GLCRVTLTYADLTSTEGNLAT----ETILIGGPARPGFEDARTTG 173
D+ V + G VT+ TS N+AT E + PG + G
Sbjct: 67 DVTVKYTQGSWTGFVGEDLVTIPKGFNTSFLVNIATIFESENFFL-----PGI---KWNG 118
Query: 174 LMGMNRGSL------------SFITQMGFPK-FSYCI---------SGVDSSGVLLFGDA 211
++G+ +L S +TQ P FS + SG + ++L G
Sbjct: 119 ILGLAYATLAKPSSSLETFFDSLVTQANIPNVFSMQMCGAGLPVAGSGTNGGSLVLGGIE 178
Query: 212 SFAWLKPLSYTPLVRISKPLPYFDRVAYSVQLEGIKVGSKVLNLPKSVFIPDHTGAGQTM 271
+ + YTP+ + Y +++ +++G + LNL + D + +
Sbjct: 179 PSLYKGDIWYTPIK---------EEWYYQIEILKLEIGGQSLNLDCREYNAD-----KAI 224
Query: 272 VDSGTQFTFLLGEVYSALKNEFIQQTKGILRVFDDPNF---VFQGAMDLCYLIESTGPSL 328
VDSGT L +V+ A+ + + R P F + G+ C+ T S
Sbjct: 225 VDSGTTLLRLPQKVFDAV-------VEAVARASLIPEFSDGFWTGSQLACWTNSETPWSY 277
Query: 329 PRLPIVSLMFSGAEMSVSGERL-----LYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIG 383
P +S+ E S R+ LY P + G + C+ FG S A VIG
Sbjct: 278 --FPKISIYLRD-ENSSRSFRITILPQLYIQPMMGAGLN-YECYRFGISP--STNALVIG 331
Query: 384 HHHQQNLWVEFDLINSRVGFAEVRC 408
+ +V FD RVGFA C
Sbjct: 332 ATVMEGFYVIFDRAQKRVGFAASPC 356
>pdb|1T6E|X Chain X, Crystal Structure Of The Triticum Aestivum Xylanase
Inhibitor I
pdb|1T6G|A Chain A, Crystal Structure Of The Triticum Aestivum Xylanase
Inhibitor-i In Complex With Aspergillus Niger Xylanase-i
pdb|1T6G|B Chain B, Crystal Structure Of The Triticum Aestivum Xylanase
Inhibitor-i In Complex With Aspergillus Niger Xylanase-i
Length = 381
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 75/387 (19%), Positives = 140/387 (36%), Gaps = 91/387 (23%)
Query: 73 VTMVLDTGSELSWLHCKKTVSFNSIFNPLLSSSYSPVPCNSPTCKIKTQDLPVPASCDP- 131
++VLD L W C + +PC+SPTC + P P P
Sbjct: 24 ASLVLDVAGPLVWSTCDG------------GQPPAEIPCSSPTCLLANA-YPAPGCPAPS 70
Query: 132 ------------------KGLCRV-TLTYADLTS--TEGNLATETILIG-----GPARPG 165
G C +L++ + T+G+ + +G P++
Sbjct: 71 CGSDKHDKPCTAYPYNPVSGACAAGSLSHTRFVANTTDGSKPVSKVNVGVLAACAPSKLL 130
Query: 166 FEDAR-TTGLMGMNRGSLSFITQMGFP-----KFSYCISGVDSSGVLLFGDASFAW---L 216
R +TG+ G+ L+ Q+ +F C+ GV +FG W
Sbjct: 131 ASLPRGSTGVAGLANSGLALPAQVASAQKVANRFLLCLP-TGGPGVAIFGGGPVPWPQFT 189
Query: 217 KPLSYTPLVRISKPLPYFDRVAYSVQLEGIKVGSKVLNLPKSVFIPDHTGAGQTMVDSGT 276
+ + YTPLV A+ + I VG + +P+ G M+ +
Sbjct: 190 QSMPYTPLVTKG------GSPAHYISARSIVVGDTRVPVPEGAL-----ATGGVMLSTRL 238
Query: 277 QFTFLLGEVYSALKNEFI-----QQTKG--ILRVFDDPNFVFQGAMDLCYLIESTGPSLP 329
+ L +VY L + F Q G + R + +CY ++ G +L
Sbjct: 239 PYVLLRPDVYRPLMDAFTKALAAQHANGAPVARAVE-----AVAPFGVCYDTKTLGNNLG 293
Query: 330 --RLPIVSL-MFSGAEMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIE-------A 379
+P V L + G++ +++G+ + V + C F ++ G+ A
Sbjct: 294 GYAVPNVQLGLDGGSDWTMTGKNSMVDV------KQGTACVAF--VEMKGVAAGDGRAPA 345
Query: 380 FVIGHHHQQNLWVEFDLINSRVGFAEV 406
++G ++ ++FD+ R+GF+ +
Sbjct: 346 VILGGAQMEDFVLDFDMEKKRLGFSRL 372
>pdb|1G0V|A Chain A, The Structure Of Proteinase A Complexed With A Ia3 Mutant,
Mvv
Length = 329
Score = 35.8 bits (81), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 55/224 (24%), Positives = 92/224 (41%), Gaps = 40/224 (17%)
Query: 52 LSFHHNVSLTVSLKLGSPPQDVTMVLDTGSELSWL---HCKKTVSF-NSIFNPLLSSSYS 107
L+ + N + LG+PPQ+ ++LDTGS W+ C F +S ++ SSSY
Sbjct: 7 LTNYLNAQYYTDITLGTPPQNFKVILDTGSSNLWVPSNECGSLACFLHSKYDHEASSSYK 66
Query: 108 PVPCNSPTCKIK--TQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGGPARPG 165
N I+ T L S D TL+ DLT + + A T + PG
Sbjct: 67 ---ANGTEFAIQYGTGSLEGYISQD-------TLSIGDLTIPKQDFAEAT------SEPG 110
Query: 166 --FEDARTTGLMGMNRGSLSF----------ITQ--MGFPKFSYCISGVDSSGVLLFGDA 211
F + G++G+ ++S I Q + +F++ + G S G+A
Sbjct: 111 LTFAFGKFDGILGLGYDTISVDKVVPPFYNAIQQDLLDEKRFAFYL-GDTSKDTENGGEA 169
Query: 212 SFAWLKPLSYTPLVRISKPLPYFDRVAYSVQLEGIKVGSKVLNL 255
+F + + + LP + + V+ EGI +G + L
Sbjct: 170 TFGGIDESKFKGDITW---LPVRRKAYWEVKFEGIGLGDEYAEL 210
>pdb|1DP5|A Chain A, The Structure Of Proteinase A Complexed With A Ia3 Mutant
Inhibitor
pdb|1DPJ|A Chain A, The Structure Of Proteinase A Complexed With Ia3 Peptide
Inhibitor
pdb|1FMU|A Chain A, Structure Of Native Proteinase A In P3221 Space Group.
pdb|1FMX|A Chain A, Structure Of Native Proteinase A In The Space Group P21
pdb|1FMX|B Chain B, Structure Of Native Proteinase A In The Space Group P21
Length = 329
Score = 35.8 bits (81), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 55/224 (24%), Positives = 92/224 (41%), Gaps = 40/224 (17%)
Query: 52 LSFHHNVSLTVSLKLGSPPQDVTMVLDTGSELSWL---HCKKTVSF-NSIFNPLLSSSYS 107
L+ + N + LG+PPQ+ ++LDTGS W+ C F +S ++ SSSY
Sbjct: 7 LTNYLNAQYYTDITLGTPPQNFKVILDTGSSNLWVPSNECGSLACFLHSKYDHEASSSYK 66
Query: 108 PVPCNSPTCKIK--TQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGGPARPG 165
N I+ T L S D TL+ DLT + + A T + PG
Sbjct: 67 ---ANGTEFAIQYGTGSLEGYISQD-------TLSIGDLTIPKQDFAEAT------SEPG 110
Query: 166 --FEDARTTGLMGMNRGSLSF----------ITQ--MGFPKFSYCISGVDSSGVLLFGDA 211
F + G++G+ ++S I Q + +F++ + G S G+A
Sbjct: 111 LTFAFGKFDGILGLGYDTISVDKVVPPFYNAIQQDLLDEKRFAFYL-GDTSKDTENGGEA 169
Query: 212 SFAWLKPLSYTPLVRISKPLPYFDRVAYSVQLEGIKVGSKVLNL 255
+F + + + LP + + V+ EGI +G + L
Sbjct: 170 TFGGIDESKFKGDITW---LPVRRKAYWEVKFEGIGLGDEYAEL 210
>pdb|2JXR|A Chain A, Structure Of Yeast Proteinase A
pdb|1FQ4|A Chain A, Crystal Structure Of A Complex Between Hydroxyethylene
Inhibitor Cp- 108,420 And Yeast Aspartic Proteinase A
pdb|1FQ5|A Chain A, X-Ray Struture Of A Cyclic Statine Inhibitor Pd-129,541
Bound To Yeast Proteinase A
pdb|1FQ6|A Chain A, X-Ray Structure Of Glycol Inhibitor Pd-133,450 Bound To
Saccharopepsin
pdb|1FQ7|A Chain A, X-Ray Structure Of Inhibitor Cp-72,647 Bound To
Saccharopepsin
pdb|1FQ8|A Chain A, X-Ray Structure Of Difluorostatine Inhibitor Cp81,198
Bound To Saccharopepsin
Length = 329
Score = 35.8 bits (81), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 55/224 (24%), Positives = 92/224 (41%), Gaps = 40/224 (17%)
Query: 52 LSFHHNVSLTVSLKLGSPPQDVTMVLDTGSELSWL---HCKKTVSF-NSIFNPLLSSSYS 107
L+ + N + LG+PPQ+ ++LDTGS W+ C F +S ++ SSSY
Sbjct: 7 LTNYLNAQYYTDITLGTPPQNFKVILDTGSSNLWVPSNECGSLACFLHSKYDHEASSSYK 66
Query: 108 PVPCNSPTCKIK--TQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGGPARPG 165
N I+ T L S D TL+ DLT + + A T + PG
Sbjct: 67 ---ANGTEFAIQYGTGSLEGYISQD-------TLSIGDLTIPKQDFAEAT------SEPG 110
Query: 166 --FEDARTTGLMGMNRGSLSF----------ITQ--MGFPKFSYCISGVDSSGVLLFGDA 211
F + G++G+ ++S I Q + +F++ + G S G+A
Sbjct: 111 LTFAFGKFDGILGLGYDTISVDKVVPPFYNAIQQDLLDEKRFAFYL-GDTSKDTENGGEA 169
Query: 212 SFAWLKPLSYTPLVRISKPLPYFDRVAYSVQLEGIKVGSKVLNL 255
+F + + + LP + + V+ EGI +G + L
Sbjct: 170 TFGGIDESKFKGDITW---LPVRRKAYWEVKFEGIGLGDEYAEL 210
>pdb|4AA9|A Chain A, Camel Chymosin At 1.6a Resolution
Length = 320
Score = 35.8 bits (81), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 29/47 (61%), Gaps = 4/47 (8%)
Query: 64 LKLGSPPQDVTMVLDTGSELSW---LHCKKTVSFN-SIFNPLLSSSY 106
+ +G+PPQ+ T+V DTGS W ++CK V N F+P SS++
Sbjct: 17 IYIGTPPQEFTVVFDTGSSDLWVPSIYCKSNVCKNHHRFDPRKSSTF 63
>pdb|1HTR|B Chain B, Crystal And Molecular Structures Of Human Progastricsin At
1.62 Angstroms Resolution
pdb|1AVF|A Chain A, Activation Intermediate 2 Of Human Gastricsin From Human
Stomach
pdb|1AVF|J Chain J, Activation Intermediate 2 Of Human Gastricsin From Human
Stomach
Length = 329
Score = 35.0 bits (79), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 31/48 (64%), Gaps = 4/48 (8%)
Query: 64 LKLGSPPQDVTMVLDTGSELSW---LHCK-KTVSFNSIFNPLLSSSYS 107
+ +G+PPQ+ ++ DTGS W ++C+ + + +S FNP SS+YS
Sbjct: 18 ISIGTPPQNFLVLFDTGSSNLWVPSVYCQSQACTSHSRFNPSESSTYS 65
>pdb|3VCM|A Chain A, Crystal Structure Of Human Prorenin
pdb|3VCM|B Chain B, Crystal Structure Of Human Prorenin
Length = 335
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 86/386 (22%), Positives = 142/386 (36%), Gaps = 116/386 (30%)
Query: 64 LKLGSPPQDVTMVLDTGSELSWL---HCKKTVS---FNSIFNPLLSSSYSPVPCNSPTCK 117
+ +G+PPQ +V DTGS W+ C + + ++ +F+ SSSY
Sbjct: 24 IGIGTPPQTFKVVFDTGSSNVWVPSSKCSRLYTACVYHKLFDASDSSSYK---------- 73
Query: 118 IKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGG-------------PARP 164
+TL Y+ T G L+ + I +GG PA P
Sbjct: 74 --------------HNGTELTLRYSTGT-VSGFLSQDIITVGGITVTQMFGEVTEMPALP 118
Query: 165 GFEDARTTGLMGMNRGSLSFITQMGFPKFSYCISGVDSSGVLLFGDASFAWLK-PLSYTP 223
F A G++GM FI Q + + + S GVL SF + + L
Sbjct: 119 -FMLAEFDGVVGMG-----FIEQ-AIGRVTPIFDNIISQGVLKEDVFSFYYNRDSLGGQI 171
Query: 224 LVRISKPLPYFDRVAY---------SVQLEGIKVGSKVLNLPKSVFIPDHTGAGQTMVDS 274
++ S P Y Y +Q++G+ VGS L +VD+
Sbjct: 172 VLGGSDPQHYEGNFHYINLIKTGVWQIQMKGVSVGSSTLLCEDGCL---------ALVDT 222
Query: 275 GTQFTFLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIE-STGPSLPRLPI 333
G +++ G S K ++ R+FD Y+++ + GP+LP
Sbjct: 223 GA--SYISGSTSSIEK--LMEALGAKKRLFD-------------YVVKCNEGPTLPD--- 262
Query: 334 VSLMFSGAEMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDL--LGIEA----------FV 381
+S G E +++ D V+ ++ + L L I A +
Sbjct: 263 ISFHLGGKEYTLTSA-------------DYVFQESYSSKKLCTLAIHAMDIPPPTGPTWA 309
Query: 382 IGHHHQQNLWVEFDLINSRVGFAEVR 407
+G + + EFD N+R+GFA R
Sbjct: 310 LGATFIRKFYTEFDRRNNRIGFALAR 335
>pdb|1FLH|A Chain A, Crystal Structure Of Human Uropepsin At 2.45 A Resolution
Length = 326
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 4/48 (8%)
Query: 63 SLKLGSPPQDVTMVLDTGSELSW---LHCKKTVSFN-SIFNPLLSSSY 106
++ +G+P QD T+V DTGS W ++C N + FNP SS+Y
Sbjct: 17 TIGIGTPAQDFTVVFDTGSSNLWVPSVYCSSLACTNHNRFNPEDSSTY 64
>pdb|1PSO|E Chain E, The Crystal Structure Of Human Pepsin And Its Complex With
Pepstatin
pdb|1QRP|E Chain E, Human Pepsin 3a In Complex With A Phosphonate Inhibitor
Iva-Val-Val- Leu(P)-(O)phe-Ala-Ala-Ome
pdb|1PSN|A Chain A, The Crystal Structure Of Human Pepsin And Its Complex With
Pepstatin
pdb|3UTL|A Chain A, Human Pepsin 3b
Length = 326
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 4/48 (8%)
Query: 63 SLKLGSPPQDVTMVLDTGSELSW---LHCKKTVSFN-SIFNPLLSSSY 106
++ +G+P QD T+V DTGS W ++C N + FNP SS+Y
Sbjct: 17 TIGIGTPAQDFTVVFDTGSSNLWVPSVYCSSLACTNHNRFNPEDSSTY 64
>pdb|3CMS|A Chain A, Engineering Enzyme Sub-Site Specificity: Preparation,
Kinetic Characterization And X-Ray Analysis At
2.0-Angstroms Resolution Of Val111phe Site-Mutated Calf
Chymosin
Length = 323
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 4/47 (8%)
Query: 64 LKLGSPPQDVTMVLDTGSELSW---LHCKKTVSFN-SIFNPLLSSSY 106
+ LG+PPQ+ T++ DTGS W ++CK N F+P SS++
Sbjct: 20 IYLGTPPQEFTVLFDTGSSDFWVPSIYCKSNACKNHQRFDPRKSSTF 66
>pdb|1CZI|E Chain E, Chymosin Complex With The Inhibitor Cp-113972
pdb|1CMS|A Chain A, The Three-Dimensional Structure Of Recombinant Bovine
Chymosin At 2.3 Angstroms Resolution
pdb|4CMS|A Chain A, X-Ray Analyses Of Aspartic Proteinases Iv. Structure And
Refinement At 2.2 Angstroms Resolution Of Bovine
Chymosin
pdb|4AA8|A Chain A, Bovine Chymosin At 1.8a Resolution
Length = 323
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 4/47 (8%)
Query: 64 LKLGSPPQDVTMVLDTGSELSW---LHCKKTVSFN-SIFNPLLSSSY 106
+ LG+PPQ+ T++ DTGS W ++CK N F+P SS++
Sbjct: 20 IYLGTPPQEFTVLFDTGSSDFWVPSIYCKSNACKNHQRFDPRKSSTF 66
>pdb|1AM5|A Chain A, The Crystal Structure And Proposed Amino Acid Sequence Of
A Pepsin From Atlantic Cod (Gadus Morhua)
Length = 324
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 64 LKLGSPPQDVTMVLDTGSELSWL---HCK-KTVSFNSIFNPLLSSSY 106
+ +G+PP+ ++ DTGS W+ HC + S ++ F P SS+Y
Sbjct: 18 ISIGTPPESFKVIFDTGSSNLWVSSSHCSAQACSNHNKFKPRQSSTY 64
>pdb|2I4Q|A Chain A, Human ReninPF02342674 COMPLEX
pdb|2I4Q|B Chain B, Human ReninPF02342674 COMPLEX
Length = 336
Score = 32.3 bits (72), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 82/379 (21%), Positives = 140/379 (36%), Gaps = 97/379 (25%)
Query: 64 LKLGSPPQDVTMVLDTGSELSWL---HCKKTVS---FNSIFNPLLSSSYSPVPCNSPTCK 117
+ +G+PPQ +V DTGS W+ C + + ++ +F+ SSSY
Sbjct: 20 IGIGTPPQTFKVVFDTGSSNVWVPSSKCSRLYTACVYHKLFDASDSSSYK---------- 69
Query: 118 IKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGG-------------PARP 164
+TL Y+ T G L+ + I +GG PA P
Sbjct: 70 --------------HNGTELTLRYSTGT-VSGFLSQDIITVGGITVTQMFGEVTEMPALP 114
Query: 165 GFEDARTTGLMGMNRGSLSFITQMGFPKFSYCISGVDSSGVLLFGDASFAWLK------P 218
F A G++GM FI Q + + + S GVL SF + +
Sbjct: 115 -FMLAEFDGVVGMG-----FIEQ-AIGRVTPIFDNIISQGVLKEDVFSFYYNRDSENSQS 167
Query: 219 LSYTPLVRISKPLPYFDRVAY---------SVQLEGIKVGSKVLNLPKSVFIPDHTGAGQ 269
L ++ S P Y Y +Q++G+ VGS L
Sbjct: 168 LGGQIVLGGSDPQHYEGNFHYINLIKTGVWQIQMKGVSVGSSTLLCEDGCL--------- 218
Query: 270 TMVDSGTQFTFLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIE-STGPSL 328
+VD+G +++ G S K ++ R+FD Y+++ + GP+L
Sbjct: 219 ALVDTGA--SYISGSTSSIEK--LMEALGAKKRLFD-------------YVVKCNEGPTL 261
Query: 329 PRLPIVSLMFSGAEMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLLGIEAFVIGHHHQQ 388
P +S G E +++ +++ S+ ++ G + +G +
Sbjct: 262 PD---ISFHLGGKEYTLTSADYVFQESYSSKKLCTLAIHAMDIPPPTG-PTWALGATFIR 317
Query: 389 NLWVEFDLINSRVGFAEVR 407
+ EFD N+R+GFA R
Sbjct: 318 KFYTEFDRRNNRIGFALAR 336
>pdb|1HRN|A Chain A, High Resolution Crystal Structures Of Recombinant Human
Renin In Complex With Polyhydroxymonoamide Inhibitors
pdb|1HRN|B Chain B, High Resolution Crystal Structures Of Recombinant Human
Renin In Complex With Polyhydroxymonoamide Inhibitors
pdb|1BIM|A Chain A, Crystallographic Studies On The Binding Modes Of P2-P3
Butanediamide Renin Inhibitors
pdb|1BIM|B Chain B, Crystallographic Studies On The Binding Modes Of P2-P3
Butanediamide Renin Inhibitors
pdb|1BIL|A Chain A, Crystallographic Studies On The Binding Modes Of P2-P3
Butanediamide Renin Inhibitors
pdb|1BIL|B Chain B, Crystallographic Studies On The Binding Modes Of P2-P3
Butanediamide Renin Inhibitors
pdb|3GW5|A Chain A, Crystal Structure Of Human Renin Complexed With A Novel
Inhibitor
pdb|3GW5|B Chain B, Crystal Structure Of Human Renin Complexed With A Novel
Inhibitor
pdb|3KM4|A Chain A, Optimization Of Orally Bioavailable Alkyl Amine Renin
Inhibitors
pdb|3KM4|B Chain B, Optimization Of Orally Bioavailable Alkyl Amine Renin
Inhibitors
Length = 337
Score = 32.3 bits (72), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 86/391 (21%), Positives = 142/391 (36%), Gaps = 121/391 (30%)
Query: 64 LKLGSPPQDVTMVLDTGSELSWL---HCKKTVS---FNSIFNPLLSSSYSPVPCNSPTCK 117
+ +G+PPQ +V DTGS W+ C + + ++ +F+ SSSY
Sbjct: 21 IGIGTPPQTFKVVFDTGSSNVWVPSSKCSRLYTACVYHKLFDASDSSSYK---------- 70
Query: 118 IKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGG-------------PARP 164
+TL Y+ T G L+ + I +GG PA P
Sbjct: 71 --------------HNGTELTLRYSTGT-VSGFLSQDIITVGGITVTQMFGEVTEMPALP 115
Query: 165 GFEDARTTGLMGMNRGSLSFITQMGFPKFSYCISGVDSSGVLLFGDASFAWLK------P 218
F A G++GM FI Q + + + S GVL SF + +
Sbjct: 116 -FMLAEFDGVVGMG-----FIEQ-AIGRVTPIFDNIISQGVLKEDVFSFYYNRDSENSQS 168
Query: 219 LSYTPLVRISKPLPYFDRVAY---------SVQLEGIKVGSKVLNLPKSVFIPDHTGAGQ 269
L ++ S P Y Y +Q++G+ VGS L
Sbjct: 169 LGGQIVLGGSDPQHYEGNFHYINLIKTGVWQIQMKGVSVGSSTLLCEDGCL--------- 219
Query: 270 TMVDSGTQFTFLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIE-STGPSL 328
+VD+G +++ G S K ++ R+FD Y+++ + GP+L
Sbjct: 220 ALVDTGA--SYISGSTSSIEK--LMEALGAKKRLFD-------------YVVKCNEGPTL 262
Query: 329 PRLPIVSLMFSGAEMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDL--LGIEA------- 379
P +S G E +++ D V+ ++ + L L I A
Sbjct: 263 PD---ISFHLGGKEYTLTSA-------------DYVFQESYSSKKLCTLAIHAMDIPPPT 306
Query: 380 ---FVIGHHHQQNLWVEFDLINSRVGFAEVR 407
+ +G + + EFD N+R+GFA R
Sbjct: 307 GPTWALGATFIRKFYTEFDRRNNRIGFALAR 337
>pdb|2G24|A Chain A, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G24|B Chain B, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G26|A Chain A, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G26|B Chain B, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G27|A Chain A, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G27|B Chain B, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2FS4|A Chain A, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
C Ring
pdb|2FS4|B Chain B, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
C Ring
pdb|2G1N|A Chain A, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G1N|B Chain B, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G1O|A Chain A, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G1O|B Chain B, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G1R|A Chain A, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
C Ring
pdb|2G1R|B Chain B, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
C Ring
pdb|2G1S|A Chain A, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
C Ring
pdb|2G1S|B Chain B, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
C Ring
pdb|2G1Y|A Chain A, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G1Y|B Chain B, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G20|A Chain A, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
C Ring
pdb|2G20|B Chain B, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
C Ring
pdb|2G21|A Chain A, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G21|B Chain B, Ketopiperazine-Based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G22|A Chain A, Ketopiperazine-based Renin Inhibitors: Optimization Of The
"c" Ring
pdb|2G22|B Chain B, Ketopiperazine-based Renin Inhibitors: Optimization Of The
"c" Ring
Length = 333
Score = 32.3 bits (72), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 86/391 (21%), Positives = 142/391 (36%), Gaps = 121/391 (30%)
Query: 64 LKLGSPPQDVTMVLDTGSELSWL---HCKKTVS---FNSIFNPLLSSSYSPVPCNSPTCK 117
+ +G+PPQ +V DTGS W+ C + + ++ +F+ SSSY
Sbjct: 17 IGIGTPPQTFKVVFDTGSSNVWVPSSKCSRLYTACVYHKLFDASDSSSYK---------- 66
Query: 118 IKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGG-------------PARP 164
+TL Y+ T G L+ + I +GG PA P
Sbjct: 67 --------------HNGTELTLRYSTGT-VSGFLSQDIITVGGITVTQMFGEVTEMPALP 111
Query: 165 GFEDARTTGLMGMNRGSLSFITQMGFPKFSYCISGVDSSGVLLFGDASFAWLK------P 218
F A G++GM FI Q + + + S GVL SF + +
Sbjct: 112 -FMLAEFDGVVGMG-----FIEQ-AIGRVTPIFDNIISQGVLKEDVFSFYYNRDSENSQS 164
Query: 219 LSYTPLVRISKPLPYFDRVAY---------SVQLEGIKVGSKVLNLPKSVFIPDHTGAGQ 269
L ++ S P Y Y +Q++G+ VGS L
Sbjct: 165 LGGQIVLGGSDPQHYEGNFHYINLIKTGVWQIQMKGVSVGSSTLLCEDGCL--------- 215
Query: 270 TMVDSGTQFTFLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIE-STGPSL 328
+VD+G +++ G S K ++ R+FD Y+++ + GP+L
Sbjct: 216 ALVDTGA--SYISGSTSSIEK--LMEALGAKKRLFD-------------YVVKCNEGPTL 258
Query: 329 PRLPIVSLMFSGAEMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDL--LGIEA------- 379
P +S G E +++ D V+ ++ + L L I A
Sbjct: 259 PD---ISFHLGGKEYTLTSA-------------DYVFQESYSSKKLCTLAIHAMDIPPPT 302
Query: 380 ---FVIGHHHQQNLWVEFDLINSRVGFAEVR 407
+ +G + + EFD N+R+GFA R
Sbjct: 303 GPTWALGATFIRKFYTEFDRRNNRIGFALAR 333
>pdb|2X0B|A Chain A, Crystal Structure Of Human Angiotensinogen Complexed With
Renin
pdb|2X0B|C Chain C, Crystal Structure Of Human Angiotensinogen Complexed With
Renin
pdb|2X0B|E Chain E, Crystal Structure Of Human Angiotensinogen Complexed With
Renin
pdb|2X0B|G Chain G, Crystal Structure Of Human Angiotensinogen Complexed With
Renin
Length = 383
Score = 32.3 bits (72), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 88/391 (22%), Positives = 139/391 (35%), Gaps = 121/391 (30%)
Query: 64 LKLGSPPQDVTMVLDTGSELSWL---HCKKTVS---FNSIFNPLLSSSYSPVPCNSPTCK 117
+ +G+PPQ +V DTGS W+ C + + ++ +F+ SSSY
Sbjct: 67 IGIGTPPQTFKVVFDTGSSNVWVPSSKCSRLYTACVYHKLFDASDSSSYK---------- 116
Query: 118 IKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGG-------------PARP 164
+TL Y+ T G L+ + I +GG PA P
Sbjct: 117 --------------HNGTELTLRYSTGT-VSGFLSQDIITVGGITVTQMFGEVTEMPALP 161
Query: 165 GFEDARTTGLMGMNRGSLSFITQMGFPKFSYCISGVDSSGVLLFGDASFAWLK------P 218
F A G++GM FI Q + + + S GVL SF + +
Sbjct: 162 -FMLAEFDGVVGMG-----FIEQ-AIGRVTPIFDNIISQGVLKEDVFSFYYNRDSENSQS 214
Query: 219 LSYTPLVRISKPLPYFDRVAY---------SVQLEGIKVGSKVLNLPKSVFIPDHTGAGQ 269
L ++ S P Y Y +Q++G+ VGS L TGA
Sbjct: 215 LGGQIVLGGSDPQHYEGNFHYINLIKTGVWQIQMKGVSVGSSTLLCEDGCLALVDTGA-- 272
Query: 270 TMVDSGTQFTFLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIE-STGPSL 328
+ + T L E A K R+FD Y+++ + GP+L
Sbjct: 273 SYISGSTSSIEKLMEALGAKK-----------RLFD-------------YVVKCNEGPTL 308
Query: 329 PRLPIVSLMFSGAEMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDL--LGIEA------- 379
P +S G E +++ D V+ ++ + L L I A
Sbjct: 309 PD---ISFHLGGKEYTLTSA-------------DYVFQESYSSKKLCTLAIHAMDIPPPT 352
Query: 380 ---FVIGHHHQQNLWVEFDLINSRVGFAEVR 407
+ +G + + EFD N+R+GFA R
Sbjct: 353 GPTWALGATFIRKFYTEFDRRNNRIGFALAR 383
>pdb|3D91|A Chain A, Human Renin In Complex With Remikiren
pdb|3D91|B Chain B, Human Renin In Complex With Remikiren
pdb|3G6Z|A Chain A, Design And Preparation Of Potent, Non-Peptidic,
Bioavailable Renin Inhibitors
pdb|3G6Z|B Chain B, Design And Preparation Of Potent, Non-Peptidic,
Bioavailable Renin Inhibitors
pdb|3G70|A Chain A, Design And Preparation Of Potent, Non-Peptidic,
Bioavailable Renin Inhibitors
pdb|3G70|B Chain B, Design And Preparation Of Potent, Non-Peptidic,
Bioavailable Renin Inhibitors
pdb|3K1W|A Chain A, New Classes Of Potent And Bioavailable Human Renin
Inhibitors
pdb|3K1W|B Chain B, New Classes Of Potent And Bioavailable Human Renin
Inhibitors
pdb|3OWN|A Chain A, Potent Macrocyclic Renin Inhibitors
pdb|3OWN|B Chain B, Potent Macrocyclic Renin Inhibitors
Length = 341
Score = 32.3 bits (72), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 86/391 (21%), Positives = 142/391 (36%), Gaps = 121/391 (30%)
Query: 64 LKLGSPPQDVTMVLDTGSELSWL---HCKKTVS---FNSIFNPLLSSSYSPVPCNSPTCK 117
+ +G+PPQ +V DTGS W+ C + + ++ +F+ SSSY
Sbjct: 24 IGIGTPPQTFKVVFDTGSSNVWVPSSKCSRLYTACVYHKLFDASDSSSYK---------- 73
Query: 118 IKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGG-------------PARP 164
+TL Y+ T G L+ + I +GG PA P
Sbjct: 74 --------------HNGTELTLRYSTGT-VSGFLSQDIITVGGITVTQMFGEVTEMPALP 118
Query: 165 GFEDARTTGLMGMNRGSLSFITQMGFPKFSYCISGVDSSGVLLFGDASFAWLK------P 218
F A G++GM FI Q + + + S GVL SF + +
Sbjct: 119 -FMLAEFDGVVGMG-----FIEQ-AIGRVTPIFDNIISQGVLKEDVFSFYYNRDSENSQS 171
Query: 219 LSYTPLVRISKPLPYFDRVAY---------SVQLEGIKVGSKVLNLPKSVFIPDHTGAGQ 269
L ++ S P Y Y +Q++G+ VGS L
Sbjct: 172 LGGQIVLGGSDPQHYEGNFHYINLIKTGVWQIQMKGVSVGSSTLLCEDGCL--------- 222
Query: 270 TMVDSGTQFTFLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIE-STGPSL 328
+VD+G +++ G S K ++ R+FD Y+++ + GP+L
Sbjct: 223 ALVDTGA--SYISGSTSSIEK--LMEALGAKKRLFD-------------YVVKCNEGPTL 265
Query: 329 PRLPIVSLMFSGAEMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDL--LGIEA------- 379
P +S G E +++ D V+ ++ + L L I A
Sbjct: 266 PD---ISFHLGGKEYTLTSA-------------DYVFQESYSSKKLCTLAIHAMDIPPPT 309
Query: 380 ---FVIGHHHQQNLWVEFDLINSRVGFAEVR 407
+ +G + + EFD N+R+GFA R
Sbjct: 310 GPTWALGATFIRKFYTEFDRRNNRIGFALAR 340
>pdb|1ZAP|A Chain A, Secreted Aspartic Protease From C. Albicans
Length = 342
Score = 32.0 bits (71), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 48/111 (43%), Gaps = 21/111 (18%)
Query: 55 HHNVSLTVSLKLGSPPQDVTMVLDTGSELSW-----LHCKKTVSFNSIFNPLLSSSYSPV 109
+ V+ + +GS Q + +++DTGS W + C+ T S + +Y P
Sbjct: 9 NEQVTYAADITVGSNNQKLNVIVDTGSSDLWVPDVNIDCQVTYSDQTADFCKQKGTYDPS 68
Query: 110 PCNSPTCKIKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGG 160
++ +QDL P S + Y D +S++G L +T+ GG
Sbjct: 69 GSSA------SQDLNTPFS----------IGYGDGSSSQGTLYKDTVGFGG 103
>pdb|2BKS|A Chain A, Crystal Structure Of Renin-Pf00074777 Complex
pdb|2BKS|B Chain B, Crystal Structure Of Renin-Pf00074777 Complex
pdb|2BKT|A Chain A, Crystal Structure Of Renin-Pf00257567 Complex
pdb|2BKT|B Chain B, Crystal Structure Of Renin-Pf00257567 Complex
pdb|2IKO|A Chain A, Crystal Structure Of Human Renin Complexed With Inhibitor
pdb|2IKO|B Chain B, Crystal Structure Of Human Renin Complexed With Inhibitor
pdb|2IKU|A Chain A, Crystal Structure Of Human Renin Complexed With Inhibitors
pdb|2IKU|B Chain B, Crystal Structure Of Human Renin Complexed With Inhibitors
pdb|2IL2|A Chain A, Crystal Structure Of Human Renin Complexed With Inhibitor
pdb|2IL2|B Chain B, Crystal Structure Of Human Renin Complexed With Inhibitor
pdb|2V0Z|C Chain C, Crystal Structure Of Renin With Inhibitor 10 (Aliskiren)
pdb|2V0Z|O Chain O, Crystal Structure Of Renin With Inhibitor 10 (Aliskiren)
pdb|2V10|C Chain C, Crystal Structure Of Renin With Inhibitor 9
pdb|2V10|O Chain O, Crystal Structure Of Renin With Inhibitor 9
pdb|2V11|C Chain C, Crystal Structure Of Renin With Inhibitor 6
pdb|2V11|O Chain O, Crystal Structure Of Renin With Inhibitor 6
pdb|2V12|C Chain C, Crystal Structure Of Renin With Inhibitor 8
pdb|2V12|O Chain O, Crystal Structure Of Renin With Inhibitor 8
pdb|1BBS|A Chain A, X-Ray Analyses Of Peptide Inhibitor Complexes Define The
Structural Basis Of Specificity For Human And Mouse
Renins
pdb|1BBS|B Chain B, X-Ray Analyses Of Peptide Inhibitor Complexes Define The
Structural Basis Of Specificity For Human And Mouse
Renins
pdb|1RNE|A Chain A, The Crystal Structure Of Recombinant Glycosylated Human
Renin Alone And In Complex With A Transition State
Analog Inhibitor
pdb|2REN|A Chain A, Structure Of Recombinant Human Renin, A Target For
Cardiovascular- Active Drugs, At 2.5 Angstroms
Resolution
pdb|2V13|A Chain A, Crystal Structure Of Renin With Inhibitor 7
pdb|2V16|C Chain C, Crystal Structure Of Renin With Inhibitor 3
pdb|2V16|O Chain O, Crystal Structure Of Renin With Inhibitor 3
pdb|3G72|A Chain A, Design And Preparation Of Potent, Non-Peptidic,
Bioavailable Renin Inhibitors
pdb|3G72|B Chain B, Design And Preparation Of Potent, Non-Peptidic,
Bioavailable Renin Inhibitors
pdb|3OQF|A Chain A, Crystal Structure Analysis Of Renin-Indole-Piperazine
Inhibitor Complexes
pdb|3OQF|B Chain B, Crystal Structure Analysis Of Renin-Indole-Piperazine
Inhibitor Complexes
pdb|3OOT|A Chain A, Crystal Structure Analysis Of Renin-Indole-Piperazin
Inhibitor Complexes
pdb|3OOT|B Chain B, Crystal Structure Analysis Of Renin-Indole-Piperazin
Inhibitor Complexes
pdb|3OQK|A Chain A, Crystal Structure Analysis Of Renin-Indole-Piperazin
Inhibitor Complexes
pdb|3OQK|B Chain B, Crystal Structure Analysis Of Renin-Indole-Piperazin
Inhibitor Complexes
pdb|3Q3T|A Chain A, Alkyl Amine Renin Inhibitors: Filling S1 From S3
pdb|3Q3T|B Chain B, Alkyl Amine Renin Inhibitors: Filling S1 From S3
pdb|3SFC|A Chain A, Structure-Based Optimization Of Potent 4- And
6-Azaindole-3- Carboxamides As Renin Inhibitors
pdb|3SFC|B Chain B, Structure-Based Optimization Of Potent 4- And
6-Azaindole-3- Carboxamides As Renin Inhibitors
pdb|3Q4B|A Chain A, Clinically Useful Alkyl Amine Renin Inhibitors
pdb|3Q4B|B Chain B, Clinically Useful Alkyl Amine Renin Inhibitors
pdb|3Q5H|A Chain A, Clinically Useful Alkyl Amine Renin Inhibitors
pdb|3Q5H|B Chain B, Clinically Useful Alkyl Amine Renin Inhibitors
pdb|3VSW|A Chain A, Human Renin In Complex With Compound 8
pdb|3VSW|B Chain B, Human Renin In Complex With Compound 8
pdb|3VSX|A Chain A, Human Renin In Complex With Compound 18
pdb|3VSX|B Chain B, Human Renin In Complex With Compound 18
pdb|3VYD|A Chain A, Human Renin In Complex With Inhibitor 6
pdb|3VYD|B Chain B, Human Renin In Complex With Inhibitor 6
pdb|3VYE|A Chain A, Human Renin In Complex With Inhibitor 7
pdb|3VYE|B Chain B, Human Renin In Complex With Inhibitor 7
pdb|3VYF|A Chain A, Human Renin In Complex With Inhibitor 9
pdb|3VYF|B Chain B, Human Renin In Complex With Inhibitor 9
pdb|4GJ8|A Chain A, Crystal Structure Of Renin In Complex With Pkf909-724
(compound 3)
pdb|4GJ8|B Chain B, Crystal Structure Of Renin In Complex With Pkf909-724
(compound 3)
pdb|4GJ9|A Chain A, Crystal Structure Of Renin In Complex With Gp055321
(compound 4)
pdb|4GJ9|B Chain B, Crystal Structure Of Renin In Complex With Gp055321
(compound 4)
pdb|4GJA|A Chain A, Crystal Structure Of Renin In Complex With Nvp-ayl747
(compound 5)
pdb|4GJA|B Chain B, Crystal Structure Of Renin In Complex With Nvp-ayl747
(compound 5)
pdb|4GJB|A Chain A, Crystal Structure Of Renin In Complex With Nvp-bbv031
(compound 6)
pdb|4GJB|B Chain B, Crystal Structure Of Renin In Complex With Nvp-bbv031
(compound 6)
pdb|4GJC|A Chain A, Crystal Structure Of Renin In Complex With Nvp-bch965
(compound 9)
pdb|4GJC|B Chain B, Crystal Structure Of Renin In Complex With Nvp-bch965
(compound 9)
pdb|4GJD|A Chain A, Crystal Structure Of Renin In Complex With Nvp-bgq311
(compound 12)
pdb|4GJD|B Chain B, Crystal Structure Of Renin In Complex With Nvp-bgq311
(compound 12)
Length = 340
Score = 32.0 bits (71), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 86/391 (21%), Positives = 142/391 (36%), Gaps = 121/391 (30%)
Query: 64 LKLGSPPQDVTMVLDTGSELSWL---HCKKTVS---FNSIFNPLLSSSYSPVPCNSPTCK 117
+ +G+PPQ +V DTGS W+ C + + ++ +F+ SSSY
Sbjct: 24 IGIGTPPQTFKVVFDTGSSNVWVPSSKCSRLYTACVYHKLFDASDSSSYK---------- 73
Query: 118 IKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGG-------------PARP 164
+TL Y+ T G L+ + I +GG PA P
Sbjct: 74 --------------HNGTELTLRYSTGT-VSGFLSQDIITVGGITVTQMFGEVTEMPALP 118
Query: 165 GFEDARTTGLMGMNRGSLSFITQMGFPKFSYCISGVDSSGVLLFGDASFAWLK------P 218
F A G++GM FI Q + + + S GVL SF + +
Sbjct: 119 -FMLAEFDGVVGMG-----FIEQ-AIGRVTPIFDNIISQGVLKEDVFSFYYNRDSENSQS 171
Query: 219 LSYTPLVRISKPLPYFDRVAY---------SVQLEGIKVGSKVLNLPKSVFIPDHTGAGQ 269
L ++ S P Y Y +Q++G+ VGS L
Sbjct: 172 LGGQIVLGGSDPQHYEGNFHYINLIKTGVWQIQMKGVSVGSSTLLCEDGCL--------- 222
Query: 270 TMVDSGTQFTFLLGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAMDLCYLIE-STGPSL 328
+VD+G +++ G S K ++ R+FD Y+++ + GP+L
Sbjct: 223 ALVDTGA--SYISGSTSSIEK--LMEALGAKKRLFD-------------YVVKCNEGPTL 265
Query: 329 PRLPIVSLMFSGAEMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDL--LGIEA------- 379
P +S G E +++ D V+ ++ + L L I A
Sbjct: 266 PD---ISFHLGGKEYTLTSA-------------DYVFQESYSSKKLCTLAIHAMDIPPPT 309
Query: 380 ---FVIGHHHQQNLWVEFDLINSRVGFAEVR 407
+ +G + + EFD N+R+GFA R
Sbjct: 310 GPTWALGATFIRKFYTEFDRRNNRIGFALAR 340
>pdb|2H6S|A Chain A, Secreted Aspartic Proteinase (sap) 3 From Candida Albicans
pdb|2H6T|A Chain A, Secreted Aspartic Proteinase (Sap) 3 From Candida Albicans
Complexed With Pepstatin A
Length = 340
Score = 32.0 bits (71), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 81/398 (20%), Positives = 146/398 (36%), Gaps = 108/398 (27%)
Query: 54 FHHNVSLTVSLKLGSPPQDVTMVLDTGSELSWLHCKKTVSFNSIFNPLLSSSYSPVPCNS 113
+ VS + +GS Q +T+V+DTGS W VP +
Sbjct: 8 INEQVSYASDITVGSNKQKLTVVIDTGSSDLW-----------------------VPDSQ 44
Query: 114 PTCKI-KTQDLPVPASCDPKGLCRV-------------TLTYADLTSTEGNLATETILIG 159
+C+ + QD P C +G ++ Y D T+++G +TI G
Sbjct: 45 VSCQAGQGQD---PNFCKNEGTYSPSSSSSSQNLNSPFSIEYGDGTTSQGTWYKDTIGFG 101
Query: 160 GPA--RPGFEDARTT----GLMGMNRGS-----------LSFITQMGFPKFSYCI---SG 199
G + + F D +T G++G+ + ++ Q K +Y + S
Sbjct: 102 GISITKQQFADVTSTSVDQGILGIGYKTHEAEGNYDNVPVTLKNQGIISKNAYSLYLNSR 161
Query: 200 VDSSGVLLFGDASFAWLKPLSYTPLVRISKPLPYFDRVAYSVQLEGIKVGSKVLNLPKSV 259
+SG ++FG A S T + LP + L +KV + +N V
Sbjct: 162 QATSGQIIFGGVDNA---KYSGTLI-----ALPVTSDNELRIHLNTVKVAGQSINADVDV 213
Query: 260 FIPDHTGAGQTMVDSGTQFTFL----LGEVYSALKNEFIQQTKGILRVFDDPNFVFQGAM 315
++DSGT T+L +V SA + G L D N G++
Sbjct: 214 -----------LLDSGTTITYLQQGVADQVISAFNGQETYDANGNLFYLVDCN--LSGSV 260
Query: 316 DLCYLIESTGPSLPRLPIVSLMFSGAEMSVSGERLLYRVPGLSRGRDSVYCFTFGNSDLL 375
D + ++ S+P + +++ +LL FG SD
Sbjct: 261 DFAF-DKNAKISVPASEFTAPLYTEDGQVYDQCQLL-----------------FGTSDY- 301
Query: 376 GIEAFVIGHHHQQNLWVEFDLINSRVGFAEVRCDIASK 413
++G + ++ ++ +DL ++ + A+V+ AS
Sbjct: 302 ----NILGDNFLRSAYIVYDLDDNEISLAQVKYTTASN 335
>pdb|1B5F|A Chain A, Native Cardosin A From Cynara Cardunculus L.
pdb|1B5F|C Chain C, Native Cardosin A From Cynara Cardunculus L
Length = 239
Score = 32.0 bits (71), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 24/42 (57%)
Query: 52 LSFHHNVSLTVSLKLGSPPQDVTMVLDTGSELSWLHCKKTVS 93
L+ + S + +G+PPQ T++ DTGS + W+ K ++
Sbjct: 7 LTNDRDTSYFGEIGIGTPPQKFTVIFDTGSSVLWVPSSKCIN 48
>pdb|3FV3|A Chain A, Secreted Aspartic Protease 1 From Candida Parapsilosis In
Complex With Pepstatin A
pdb|3FV3|B Chain B, Secreted Aspartic Protease 1 From Candida Parapsilosis In
Complex With Pepstatin A
pdb|3FV3|C Chain C, Secreted Aspartic Protease 1 From Candida Parapsilosis In
Complex With Pepstatin A
pdb|3FV3|D Chain D, Secreted Aspartic Protease 1 From Candida Parapsilosis In
Complex With Pepstatin A
pdb|3FV3|E Chain E, Secreted Aspartic Protease 1 From Candida Parapsilosis In
Complex With Pepstatin A
pdb|3FV3|F Chain F, Secreted Aspartic Protease 1 From Candida Parapsilosis In
Complex With Pepstatin A
pdb|3FV3|G Chain G, Secreted Aspartic Protease 1 From Candida Parapsilosis In
Complex With Pepstatin A
pdb|3FV3|H Chain H, Secreted Aspartic Protease 1 From Candida Parapsilosis In
Complex With Pepstatin A
pdb|3TNE|A Chain A, The Crystal Structure Of Protease Sapp1p From Candida
Parapsilosis In Complex With The Hiv Protease Inhibitor
Ritonavir
pdb|3TNE|B Chain B, The Crystal Structure Of Protease Sapp1p From Candida
Parapsilosis In Complex With The Hiv Protease Inhibitor
Ritonavir
Length = 339
Score = 31.6 bits (70), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 31/127 (24%), Positives = 50/127 (39%), Gaps = 37/127 (29%)
Query: 64 LKLGSPPQDVTMVLDTGSELSWL-----HCKKTVSFNS--IFNPLLSSSYSPVPCNSPTC 116
+ +GS Q T+++DTGS W+ C K V S F P SSSY +
Sbjct: 18 VSVGSNKQQQTVIIDTGSSDFWVVDSNAQCGKGVDCKSSGTFTPSSSSSYKNLG------ 71
Query: 117 KIKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGGPARPGFEDARTT---- 172
T+ Y D ++++G +T+ I G + G + A T
Sbjct: 72 ------------------AAFTIRYGDGSTSQGTWGKDTVTINGVSITGQQIADVTQTSV 113
Query: 173 --GLMGM 177
G++G+
Sbjct: 114 DQGILGI 120
>pdb|1PSA|A Chain A, Structure Of A Pepsin(Slash)renin Inhibitor Complex
Reveals A Novel Crystal Packing Induced By Minor
Chemical Alterations In The Inhibitor
pdb|1PSA|B Chain B, Structure Of A Pepsin(Slash)renin Inhibitor Complex
Reveals A Novel Crystal Packing Induced By Minor
Chemical Alterations In The Inhibitor
pdb|1YX9|A Chain A, Effect Of Dimethyl Sulphoxide On The Crystal Structure Of
Porcine Pepsin
Length = 326
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 4/48 (8%)
Query: 63 SLKLGSPPQDVTMVLDTGSELSW---LHCKK-TVSFNSIFNPLLSSSY 106
++ +G+P QD T++ DTGS W ++C S ++ FNP SS++
Sbjct: 17 TIGIGTPAQDFTVIFDTGSSNLWVPSVYCSSLACSDHNQFNPDDSSTF 64
>pdb|3PEP|A Chain A, Revised 2.3 Angstroms Structure Of Porcine Pepsin.
Evidence For A Flexible Subdomain
Length = 326
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 4/48 (8%)
Query: 63 SLKLGSPPQDVTMVLDTGSELSW---LHCKK-TVSFNSIFNPLLSSSY 106
++ +G+P QD T++ DTGS W ++C S ++ FNP SS++
Sbjct: 17 TIGIGTPAQDFTVIFDTGSSNLWVPSVYCSSLACSDHNQFNPDDSSTF 64
>pdb|1F34|A Chain A, Crystal Structure Of Ascaris Pepsin Inhibitor-3 Bound To
Porcine Pepsin
Length = 326
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 4/48 (8%)
Query: 63 SLKLGSPPQDVTMVLDTGSELSW---LHCKK-TVSFNSIFNPLLSSSY 106
++ +G+P QD T++ DTGS W ++C S ++ FNP SS++
Sbjct: 17 TIGIGTPAQDFTVIFDTGSSNLWVPSVYCSSLACSDHNQFNPDDSSTF 64
>pdb|4PEP|A Chain A, The Molecular And Crystal Structures Of Monoclinic Porcine
Pepsin Refined At 1.8 Angstroms Resolution
Length = 326
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 4/48 (8%)
Query: 63 SLKLGSPPQDVTMVLDTGSELSW---LHCKK-TVSFNSIFNPLLSSSY 106
++ +G+P QD T++ DTGS W ++C S ++ FNP SS++
Sbjct: 17 TIGIGTPAQDFTVIFDTGSSNLWVPSVYCSSLACSDHNQFNPDDSSTF 64
>pdb|5PEP|A Chain A, X-Ray Analyses Of Aspartic Proteases. Ii.
Three-Dimensional Structure Of The Hexagonal Crystal
Form Of Porcine Pepsin At 2.3 Angstroms Resolution
Length = 326
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 4/48 (8%)
Query: 63 SLKLGSPPQDVTMVLDTGSELSW---LHCKK-TVSFNSIFNPLLSSSY 106
++ +G+P QD T++ DTGS W ++C S ++ FNP SS++
Sbjct: 17 TIGIGTPAQDFTVIFDTGSSNLWVPSVYCSSLACSDHNQFNPDDSSTF 64
>pdb|1LYW|A Chain A, Cathepsin D At Ph 7.5
pdb|1LYW|C Chain C, Cathepsin D At Ph 7.5
pdb|1LYW|E Chain E, Cathepsin D At Ph 7.5
pdb|1LYW|G Chain G, Cathepsin D At Ph 7.5
pdb|1LYA|A Chain A, Crystal Structures Of Native And Inhibited Forms Of
Human Cathepsin D: Implications For Lysosomal Targeting
And Drug Design
pdb|1LYA|C Chain C, Crystal Structures Of Native And Inhibited Forms Of
Human Cathepsin D: Implications For Lysosomal Targeting
And Drug Design
pdb|1LYB|A Chain A, Crystal Structures Of Native And Inhibited Forms Of
Human Cathepsin D: Implications For Lysosomal Targeting
And Drug Design
pdb|1LYB|C Chain C, Crystal Structures Of Native And Inhibited Forms Of
Human Cathepsin D: Implications For Lysosomal Targeting
And Drug Design
Length = 97
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 3/29 (10%)
Query: 64 LKLGSPPQDVTMVLDTGSELSW---LHCK 89
+ +G+PPQ T+V DTGS W +HCK
Sbjct: 19 IGIGTPPQCFTVVFDTGSSNLWVPSIHCK 47
>pdb|2QZW|A Chain A, Secreted Aspartic Proteinase (Sap) 1 From Candida Albicans
pdb|2QZW|B Chain B, Secreted Aspartic Proteinase (Sap) 1 From Candida Albicans
Length = 341
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 58/261 (22%), Positives = 97/261 (37%), Gaps = 44/261 (16%)
Query: 55 HHNVSLTVSLKLGSPPQDVTMVLDTGSELSW-----LHCKKTVSFNSIFNPLLSSSYSPV 109
+ +VS + +GS Q +++DTGS W + C K P
Sbjct: 9 NEHVSYAADITIGSNKQKFNVIVDTGSSDLWVPDASVTCDK-----------------PR 51
Query: 110 PCNSPT-CKIKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGGPA--RPGF 166
P S CK K P ++ + Y D +S++G L +T+ GG + + F
Sbjct: 52 PGQSADFCKGKGIYTPKSSTTSQNLGTPFYIGYGDGSSSQGTLYKDTVGFGGASITKQVF 111
Query: 167 EDARTT----GLMGMNRGSLSFITQMGFPKFSYCISGVDSSGVLLFGDASFAWLKPLSYT 222
D T G++G + + T + + + GV+ S P + T
Sbjct: 112 ADITKTSIPQGILG-----IGYKTNEAAGDYDNVPVTLKNQGVIAKNAYSLYLNSPNAAT 166
Query: 223 PLVRISKPLPYFDRVAYSVQLEGIKVGSK-----VLNLPKSVFIPDHTGAGQTMVDSGTQ 277
+ D+ YS L + V S LN K+V + G ++DSGT
Sbjct: 167 GQIIFGG----VDKAKYSGSLIAVPVTSDRELRITLNSLKAVG-KNINGNIDVLLDSGTT 221
Query: 278 FTFLLGEVYSALKNEFIQQTK 298
T+L +V + + F + K
Sbjct: 222 ITYLQQDVAQDIIDAFQAELK 242
>pdb|3PSG|A Chain A, The High Resolution Crystal Structure Of Porcine
Pepsinogen
Length = 370
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 4/48 (8%)
Query: 63 SLKLGSPPQDVTMVLDTGSELSW---LHCKK-TVSFNSIFNPLLSSSY 106
++ +G+P QD T++ DTGS W ++C S ++ FNP SS++
Sbjct: 61 TIGIGTPAQDFTVIFDTGSSNLWVPSVYCSSLACSDHNQFNPDDSSTF 108
>pdb|2PSG|A Chain A, Refined Structure Of Porcine Pepsinogen At 1.8 Angstroms
Resolution
Length = 370
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 4/48 (8%)
Query: 63 SLKLGSPPQDVTMVLDTGSELSW---LHCKK-TVSFNSIFNPLLSSSY 106
++ +G+P QD T++ DTGS W ++C S ++ FNP SS++
Sbjct: 61 TIGIGTPAQDFTVIFDTGSSNLWVPSVYCSSLACSDHNQFNPDDSSTF 108
>pdb|1EAG|A Chain A, Secreted Aspartic Proteinase (Sap2) From Candida Albicans
Complexed With A70450
pdb|3PVK|A Chain A, Secreted Aspartic Protease 2 In Complex With Benzamidine
pdb|3Q70|A Chain A, Secreted Aspartic Protease In Complex With Ritonavir
Length = 342
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 26/111 (23%), Positives = 47/111 (42%), Gaps = 21/111 (18%)
Query: 55 HHNVSLTVSLKLGSPPQDVTMVLDTGSELSW-----LHCKKTVSFNSIFNPLLSSSYSPV 109
+ V+ + +GS Q + +++DTGS W + C+ T S + +Y P
Sbjct: 9 NEQVTYAADITVGSNNQKLNVIVDTGSSDLWVPDVNVDCQVTYSDQTADFCKQKGTYDPS 68
Query: 110 PCNSPTCKIKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGG 160
++ +QDL P + Y D +S++G L +T+ GG
Sbjct: 69 GSSA------SQDLNTP----------FKIGYGDGSSSQGTLYKDTVGFGG 103
>pdb|2QZX|A Chain A, Secreted Aspartic Proteinase (Sap) 5 From Candida Albicans
pdb|2QZX|B Chain B, Secreted Aspartic Proteinase (Sap) 5 From Candida Albicans
Length = 342
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 47/110 (42%), Gaps = 19/110 (17%)
Query: 56 HN--VSLTVSLKLGSPPQDVTMVLDTGSELSWLHCKKTV---SFNSIFNPLLSSSYSPVP 110
HN ++ T + +GS Q + +++DTGS W+ + + S+ S P
Sbjct: 8 HNEAITYTADITVGSDNQKLNVIVDTGSSDLWIPDSNVICIPKWRGDKGDFCKSAGSYSP 67
Query: 111 CNSPTCKIKTQDLPVPASCDPKGLCRVTLTYADLTSTEGNLATETILIGG 160
+S T +Q+L R + Y D + +G L +T+ IGG
Sbjct: 68 ASSRT----SQNLN----------TRFDIKYGDGSYAKGKLYKDTVGIGG 103
>pdb|3OAD|A Chain A, Design And Optimization Of New Piperidines As Renin
Inhibitors
pdb|3OAD|C Chain C, Design And Optimization Of New Piperidines As Renin
Inhibitors
pdb|3OAG|A Chain A, Design And Optimization Of New Piperidines As Renin
Inhibitors
pdb|3OAG|C Chain C, Design And Optimization Of New Piperidines As Renin
Inhibitors
pdb|3O9L|A Chain A, Design And Optimisation Of New Piperidines As Renin
Inhibitors
pdb|3O9L|C Chain C, Design And Optimisation Of New Piperidines As Renin
Inhibitors
Length = 166
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 6/49 (12%)
Query: 64 LKLGSPPQDVTMVLDTGSELSWL---HCKKTVS---FNSIFNPLLSSSY 106
+ +G+PPQ +V DTGS W+ C + + ++ +F+ SSSY
Sbjct: 24 IGIGTPPQTFKVVFDTGSSNVWVPSSKCSRLYTACVYHKLFDASDSSSY 72
>pdb|1QDM|A Chain A, Crystal Structure Of Prophytepsin, A Zymogen Of A Barley
Vacuolar Aspartic Proteinase.
pdb|1QDM|B Chain B, Crystal Structure Of Prophytepsin, A Zymogen Of A Barley
Vacuolar Aspartic Proteinase.
pdb|1QDM|C Chain C, Crystal Structure Of Prophytepsin, A Zymogen Of A Barley
Vacuolar Aspartic Proteinase
Length = 478
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 52 LSFHHNVSLTVSLKLGSPPQDVTMVLDTGSELSWLHCKK 90
L + N + +G+PPQ T++ DTGS W+ K
Sbjct: 46 LKNYMNAQYFGEIGVGTPPQKFTVIFDTGSSNLWVPSAK 84
>pdb|1WKR|A Chain A, Crystal Structure Of Aspartic Proteinase From Irpex
Lacteus
Length = 340
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 21/34 (61%)
Query: 58 VSLTVSLKLGSPPQDVTMVLDTGSELSWLHCKKT 91
V V++ +GSP ++++DTGS +WL K+
Sbjct: 12 VDYVVNVGVGSPATTYSLLVDTGSSNTWLGADKS 45
>pdb|2RMP|A Chain A, Rmp-Pepstatin A Complex
pdb|2ASI|A Chain A, Aspartic Proteinase
Length = 361
Score = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 5/56 (8%)
Query: 62 VSLKLGSPPQDVTMVLDTGSELSWL---HCKKTVSF--NSIFNPLLSSSYSPVPCN 112
+ + +G+P QD ++ DTGS +W+ C K+ + F+P SS++ N
Sbjct: 22 IPVSIGTPGQDFLLLFDTGSSDTWVPHKGCTKSEGCVGSRFFDPSASSTFKATNYN 77
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.138 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,370,549
Number of Sequences: 62578
Number of extensions: 522524
Number of successful extensions: 1071
Number of sequences better than 100.0: 99
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 77
Number of HSP's that attempted gapping in prelim test: 1005
Number of HSP's gapped (non-prelim): 170
length of query: 419
length of database: 14,973,337
effective HSP length: 101
effective length of query: 318
effective length of database: 8,652,959
effective search space: 2751640962
effective search space used: 2751640962
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)