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= 020853
(320 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 70/287 (24%), Positives = 116/287 (40%), Gaps = 43/287 (14%)
Query: 3 TGFLVEDVLHLATDEKQSKSVDSRISFGCGRVQTGSFLDGAAPNGLFGLGMDKTSVPSI- 61
TGF+ ED++ + S V+ F FL G NG+ GL + PS
Sbjct: 78 TGFVGEDLVTIPKGFNTSFLVNIATIFESENF----FLPGIKWNGILGLAYATLAKPSSS 133
Query: 62 -------LANQGLIPNSFSMCF----------GSDGTGRISFGDKGSPGQGETPFSLRQT 104
L Q IPN FSM G++G + G + S +G+ ++ +
Sbjct: 134 LETFFDSLVTQANIPNVFSMQMCGAGLPVAGSGTNGGSLVLGGIEPSLYKGDIWYTPIKE 193
Query: 105 HPTYNITITQVSVGGNAVNFEF------SAIFDSGTSFTYLNDPAYTQISETF--NSLAK 156
Y I I ++ +GG ++N + AI DSGT+ L + + E SL
Sbjct: 194 EWYYQIEILKLEIGGQSLNLDCREYNADKAIVDSGTTLLRLPQKVFDAVVEAVARASLIP 253
Query: 157 EKRE--TSTSDLPFEYCYVLSPNQTNFEYPVVNLTMKGGGP-----FFVNDPIVIVSSEP 209
E + + S L C+ S ++ +P +++ ++ + + I
Sbjct: 254 EFSDGFWTGSQLA---CWTNSETPWSY-FPKISIYLRDENSSRSFRITILPQLYIQPMMG 309
Query: 210 KGLYLYC--LGVVKSDNVNIIGQNFMTGYNIVFDREKNVLGWKASDC 254
GL C G+ S N +IG M G+ ++FDR + +G+ AS C
Sbjct: 310 AGLNYECYRFGISPSTNALVIGATVMEGFYVIFDRAQKRVGFAASPC 356
>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 = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 61/262 (23%), Positives = 101/262 (38%), Gaps = 45/262 (17%)
Query: 27 ISFGCGRVQTGSFLD---GAAPNGLFGLGM-------DKTSVPSILANQGLI-PNSFSMC 75
+ FG + F D + P G+ G+G D +VP L NQG+I N++S+
Sbjct: 99 VGFGGASITKQVFADITKTSIPQGILGIGYKTNEAAGDYDNVPVTLKNQGVIAKNAYSLY 158
Query: 76 FGS--DGTGRISFGDKGSPGQGETPFSLRQT-HPTYNITITQVSVGGNAVNFEFSAIFDS 132
S TG+I FG + ++ T IT+ + G +N + DS
Sbjct: 159 LNSPNAATGQIIFGGVDKAKYSGSLIAVPVTSDRELRITLNSLKAVGKNINGNIDVLLDS 218
Query: 133 GTSFTYLNDPAYTQISETFNSLAKEK-----------RETSTSDLPFEYCYVLSPNQTNF 181
GT+ TYL I + F + K + + T D F+ +S + F
Sbjct: 219 GTTITYLQQDVAQDIIDAFQAELKSDGQGHTFYVTDCQTSGTVDFNFDNNAKISVPASEF 278
Query: 182 EYPVVNLTMKGGGPFFVNDPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFMTGYNIVFD 241
P L+ G P+ PK C ++ + NI+G NF+ +V+D
Sbjct: 279 TAP---LSYANGQPY------------PK-----CQLLLGISDANILGDNFLRSAYLVYD 318
Query: 242 REKNVLGWKASDCYGVNNSSAL 263
+ + + +N +AL
Sbjct: 319 LDDDKISLAQVKYTSASNIAAL 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 = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 59/243 (24%), Positives = 97/243 (39%), Gaps = 43/243 (17%)
Query: 27 ISFGCGRVQTGSFLD---GAAPNGLFGLGM-------DKTSVPSILANQGLI-PNSFSMC 75
I FG + F D + G+ G+G + +VP L NQG+I N++S+
Sbjct: 98 IGFGGISITKQQFADVTSTSVDQGILGIGYKTHEAEGNYDNVPVTLKNQGIISKNAYSLY 157
Query: 76 FGSDG--TGRISFGDKGSPGQGETPFSLRQTHPT-YNITITQVSVGGNAVNFEFSAIFDS 132
S +G+I FG + T +L T I + V V G ++N + + DS
Sbjct: 158 LNSRQATSGQIIFGGVDNAKYSGTLIALPVTSDNELRIHLNTVKVAGQSINADVDVLLDS 217
Query: 133 GTSFTYLNDPAYTQISETFNSLAKEKRETSTSDLPFEYCYVLSPNQTNFEYPVVNLTMKG 192
GT+ TYL Q+ FN +ET ++ Y +V+ + G
Sbjct: 218 GTTITYLQQGVADQVISAFNG-----QETYDANGNLFY--------------LVDCNLSG 258
Query: 193 GGPFFVNDPIVI----------VSSEPKGLYLYCLGVVKSDNVNIIGQNFMTGYNIVFDR 242
F + I + +E +Y C + + + NI+G NF+ IV+D
Sbjct: 259 SVDFAFDKNAKISVPASEFTAPLYTEDGQVYDQCQLLFGTSDYNILGDNFLRSAYIVYDL 318
Query: 243 EKN 245
+ N
Sbjct: 319 DDN 321
>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 = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 54/235 (22%), Positives = 85/235 (36%), Gaps = 34/235 (14%)
Query: 46 NGLFGLGMDKTSVPSILANQGLIPNSFSMCFGSDGTGRISFGDKGSP------GQGETPF 99
G+ GL ++PS +A+ +PN F +C + G G FG P TP
Sbjct: 140 TGVAGLAGSGLALPSQVASAQKVPNKFLLCLPTGGPGVAIFGGGPLPWPQFTQSMDYTPL 199
Query: 100 SLRQTHPTYNITITQVSVGGNAVNFEFSAIFDSGT------SFTYLNDPAYTQISETF-N 152
+ P + I+ + V V A+ G + L Y + + F
Sbjct: 200 VAKGGSPAHYISARSIKVENTRVPISERALATGGVMLSTRLPYVLLRRDVYRPLVDAFTK 259
Query: 153 SLAKEK------RETSTSDLPFEYCY---VLSPNQTNFEYPVVNLTMKGGGPFFVNDPIV 203
+LA + PFE CY L N + P V L + GG + +
Sbjct: 260 ALAAQPANGAPVARAVKPVAPFELCYDTKTLGNNPGGYWVPNVLLELDGGSDWAMTGKNS 319
Query: 204 IVSSEPKGLYLYCLGVVKSDNVN---------IIGQNFMTGYNIVFDREKNVLGW 249
+V +P C+ V+ V+ I+G M + + FD EK LG+
Sbjct: 320 MVDVKPG---TACVAFVEMKGVDAGDGSAPAVILGGAQMEDFVLDFDMEKKRLGF 371
>pdb|1LS5|A Chain A, Crystal Structure Of Plasmepsin Iv From P. Falciparum In
Complex With Pepstatin A
pdb|1LS5|B Chain B, Crystal Structure Of Plasmepsin Iv From P. Falciparum In
Complex With Pepstatin A
Length = 328
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 59/224 (26%), Positives = 90/224 (40%), Gaps = 28/224 (12%)
Query: 42 GAAPNGLFGLGMDKTSVPSI------LANQGLIPN---SFSMCFGSDGTGRISFGDKGSP 92
G+ +G+ GLG S+ SI L Q I N +F + G ++ G S
Sbjct: 117 GSEFDGILGLGWKDLSIGSIDPVVVELKKQNKIDNALFTFYLPVHDKHVGYLTIGGIESD 176
Query: 93 GQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFSAIFDSGTSFTYLNDPAYTQISETFN 152
E P + + + I G V + +A+ DSGTS I+ +
Sbjct: 177 FY-EGPLTYEKLNHDLYWQIDLDIHFGKYVMQKANAVVDSGTS----------TITAPTS 225
Query: 153 SLAKEKRETSTSDLPFEYCYVLSPNQTNFEYPVVNLTMKGGG----PFFVNDPIVIVSSE 208
L K R+ + +PF YV + + N + P + + P F DP+ + +
Sbjct: 226 FLNKFFRDMNVIKVPFLPLYVTTCD--NDDLPTLEFHSRNNKYTLEPEFYMDPLSDI--D 281
Query: 209 PKGLYLYCLGVVKSDNVNIIGQNFMTGYNIVFDREKNVLGWKAS 252
P LY L V DN I+G FM Y VFD EK +G+ +
Sbjct: 282 PALCMLYILPVDIDDNTFILGDPFMRKYFTVFDYEKESVGFAVA 325
>pdb|1ZAP|A Chain A, Secreted Aspartic Protease From C. Albicans
Length = 342
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 51/199 (25%), Positives = 80/199 (40%), Gaps = 24/199 (12%)
Query: 57 SVPSILANQGLI-PNSFSMCFGS--DGTGRISFGDKGSPGQGETPFSLRQT-HPTYNITI 112
+VP L QG+I N++S+ S TG+I FG + + +L T I++
Sbjct: 139 NVPVTLKKQGVIAKNAYSLYLNSPDSATGQIIFGGVDNAKYSGSLIALPVTSDRELRISL 198
Query: 113 TQVSVGGNAVNFE-FSAIFDSGTSFTYLNDPAYTQISETFN-SLAKEKRETS----TSDL 166
V V G +N + + DSGT+ TYL QI + FN L ++ S +L
Sbjct: 199 GSVEVSGKTINTDNVDVLLDSGTTITYLQQDLADQIIKAFNGKLTQDSNGNSFYEVDCNL 258
Query: 167 PFEYCYVLSPNQTNFEYPVVNLTMKGGGPFFVNDPIVIVSSEPKGLYLYCLGVVKSDNVN 226
+ + S N P + G +P Y C + + N
Sbjct: 259 SGDVVFNFSKN-AKISVPASDFAASTQGD----------DGQP---YDKCQLLFDVNKAN 304
Query: 227 IIGQNFMTGYNIVFDREKN 245
I+G NF+ IV+D + N
Sbjct: 305 ILGDNFLRSAYIVYDLDDN 323
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 80/202 (39%), Gaps = 30/202 (14%)
Query: 57 SVPSILANQGLI-PNSFSMCFGS--DGTGRISFGDKGSPGQGETPFSLRQT-HPTYNITI 112
+VP L QG+I N++S+ S TG+I FG + + +L T I++
Sbjct: 139 NVPVTLKKQGVIAKNAYSLYLNSPDAATGQIIFGGVDNAKYSGSLIALPVTSDRELRISL 198
Query: 113 TQVSVGGNAVNFE-FSAIFDSGTSFTYLNDPAYTQISETFNSLAKEKRETSTSDLPFEYC 171
V V G +N + + DSGT+ TYL QI + FN +
Sbjct: 199 GSVEVSGKTINTDNVDVLLDSGTTITYLQQDLADQIIKAFNGKLTQ-------------- 244
Query: 172 YVLSPNQTNFEYPVVNLTMKGGGPFFVNDPIVIVSSEPKGL--------YLYCLGVVKSD 223
N +F NL+ F N I + +SE Y C + +
Sbjct: 245 ---DSNGNSFYEVDCNLSGDVVFNFSKNAKISVPASEFAASLQGDDGQPYDKCQLLFDVN 301
Query: 224 NVNIIGQNFMTGYNIVFDREKN 245
+ NI+G NF+ IV+D + N
Sbjct: 302 DANILGDNFLRSAYIVYDLDDN 323
>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 = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 51/232 (21%), Positives = 83/232 (35%), Gaps = 28/232 (12%)
Query: 46 NGLFGLGMDKTSVPSILANQGLIPNSFSMCFGSDGTGRISFGDKGSP------GQGETPF 99
G+ GL ++P+ +A+ + N F +C + G G FG P TP
Sbjct: 138 TGVAGLANSGLALPAQVASAQKVANRFLLCLPTGGPGVAIFGGGPVPWPQFTQSMPYTPL 197
Query: 100 SLRQTHPTYNITITQVSVGGNAVNFEFSAIFDSGT------SFTYLNDPAYTQISETF-N 152
+ P + I+ + VG V A+ G + L Y + + F
Sbjct: 198 VTKGGSPAHYISARSIVVGDTRVPVPEGALATGGVMLSTRLPYVLLRPDVYRPLMDAFTK 257
Query: 153 SLAKEK------RETSTSDLPFEYCY---VLSPNQTNFEYPVVNLTMKGGGPFFV---ND 200
+LA + + PF CY L N + P V L + GG + + N
Sbjct: 258 ALAAQHANGAPVARAVEAVAPFGVCYDTKTLGNNLGGYAVPNVQLGLDGGSDWTMTGKNS 317
Query: 201 PIVIVSSEPKGLYLYCLGVVKSDN---VNIIGQNFMTGYNIVFDREKNVLGW 249
+ + ++ GV D I+G M + + FD EK LG+
Sbjct: 318 MVDVKQGTACVAFVEMKGVAAGDGRAPAVILGGAQMEDFVLDFDMEKKRLGF 369
>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 = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 54/261 (20%), Positives = 97/261 (37%), Gaps = 53/261 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 125 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 184
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 185 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 244
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKEKRETSTSDLPFEY-------CYVLSPNQTNFEYP 184
SGT+ L + ++A K +ST P + C+ N +P
Sbjct: 245 SGTTNLRLPKKVFEA------AVASIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-FP 297
Query: 185 VVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFMT 234
V++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 298 VISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIME 355
Query: 235 GYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 356 GFYVVFDRARKRIGFAVSACH 376
>pdb|4B1C|A Chain A, New Aminoimidazoles As Bace-1 Inhibitors: From Rational
Design To Ab-Lowering In Brain
Length = 375
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 56/249 (22%), Positives = 98/249 (39%), Gaps = 43/249 (17%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSMCFGSDGTGRISFGDKG 90
F++G+ G+ GL + + P L Q +PN FS+ G+ I D
Sbjct: 115 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGGGSMIIGGIDH- 173
Query: 91 SPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFDSGTSFTYLNDPAY 144
S G ++ + Y + I +V + G + + +I DSGT T L P
Sbjct: 174 SLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVDSGT--TNLRLP-- 229
Query: 145 TQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEYPVVNLTMKG---G 193
+ F + K K +ST P + C+ N +PV++L + G
Sbjct: 230 ---KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-FPVISLYLMGEVTN 285
Query: 194 GPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFMTGYNIVFDREKNV 246
F + P+ V++ Y + + +S ++G M G+ +VFDR +
Sbjct: 286 QSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIMEGFYVVFDRARKR 343
Query: 247 LGWKASDCY 255
+G+ S C+
Sbjct: 344 IGFAVSACH 352
>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 = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 115 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 174
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 175 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 234
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 235 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 286
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 287 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 344
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 345 EGFYVVFDRARKRIGFAVSACH 366
>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 = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 114 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 173
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 174 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 233
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 234 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 285
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 286 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 343
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 344 EGFYVVFDRARKRIGFAVSACH 365
>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 = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 112 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 171
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 172 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 231
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 232 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 283
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 284 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 341
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 342 EGFYVVFDRARKRIGFAVSACH 363
>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 = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 118 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 177
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 178 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 237
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 238 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 289
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 290 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 347
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 348 EGFYVVFDRARKRIGFAVSACH 369
>pdb|2QZL|A Chain A, Crystal Structure Of Human Beta Secretase Complexed With
Ixs
Length = 411
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 135 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 194
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 195 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 254
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 255 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 306
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 307 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 364
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 365 EGFYVVFDRARKRIGFAVSACH 386
>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 = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 129 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 188
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 189 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 248
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 249 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 300
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 301 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 358
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 359 EGFYVVFDRARKRIGFAVSACH 380
>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 = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 113 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 172
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 173 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 232
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 233 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 284
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 285 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 342
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 343 EGFYVVFDRARKRIGFAVSACH 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 = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 115 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 174
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 175 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 234
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 235 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 286
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 287 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 344
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 345 EGFYVVFDRARKRIGFAVSACH 366
>pdb|3EXO|A Chain A, Crystal Structure Of Bace1 Bound To Inhibitor
Length = 413
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 129 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 188
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 189 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 248
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 249 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 300
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 301 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 358
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 359 EGFYVVFDRARKRIGFAVSACH 380
>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 = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 113 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 172
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 173 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 232
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 233 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 284
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 285 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 342
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 343 EGFYVVFDRARKRIGFAVSACH 364
>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 = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 113 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 172
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 173 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 232
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 233 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 284
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 285 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 342
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 343 EGFYVVFDRARKRIGFAVSACH 364
>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 = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 110 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 169
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 170 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 229
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 230 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 281
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 282 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 339
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 340 EGFYVVFDRARKRIGFAVSACH 361
>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 = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 118 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 177
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 178 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 237
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 238 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 289
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 290 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 347
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 348 EGFYVVFDRARKRIGFAVSACH 369
>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 = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 113 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 172
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 173 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 232
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 233 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 284
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 285 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 342
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 343 EGFYVVFDRARKRIGFAVSACH 364
>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 = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 130 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 189
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 190 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 249
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 250 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 301
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 302 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 359
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 360 EGFYVVFDRARKRIGFAVSACH 381
>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 = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 115 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 174
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 175 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 234
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 235 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 286
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 287 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 344
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 345 EGFYVVFDRARKRIGFAVSACH 366
>pdb|3QI1|A Chain A, Design And Synthesis Of Hydroxyethylamine (Hea) Bace-1
Inhibitors: Prime Side Chromane-Containing Inhibitors
Length = 408
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 125 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 184
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 185 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 244
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 245 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 296
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 297 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 354
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 355 EGFYVVFDRARKRIGFAVSACH 376
>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 = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 125 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 184
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 185 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 244
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 245 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 296
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 297 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 354
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 355 EGFYVVFDRARKRIGFAVSACH 376
>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 = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 127 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 186
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 187 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 246
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 247 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 298
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 299 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 356
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 357 EGFYVVFDRARKRIGFAVSACH 378
>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 = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 113 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 172
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 173 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 232
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 233 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 284
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 285 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 342
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 343 EGFYVVFDRARKRIGFAVSACH 364
>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 = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 129 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 188
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 189 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 248
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 249 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 300
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 301 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 358
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 359 EGFYVVFDRARKRIGFAVSACH 380
>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 = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 96/262 (36%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F+ G+ G+ GL + + P L Q +PN FS+
Sbjct: 110 FIQGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLQQSEVLA 169
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 170 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 229
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 230 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 281
Query: 184 PVVNLTMKGGG----------PFFVNDPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G P P+ V++ Y + + +S ++G M
Sbjct: 282 PVISLYLMGEVTQQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 339
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 340 EGFYVVFDRARKRIGFAVSACH 361
>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 = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 172 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 231
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 232 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 291
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 292 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 343
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 344 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 401
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 402 EGFYVVFDRARKRIGFAVSACH 423
>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 = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 171 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 230
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 231 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 290
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 291 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 342
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 343 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 400
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 401 EGFYVVFDRARKRIGFAVSACH 422
>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 = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 130 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 189
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 190 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 249
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 250 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 301
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 302 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 359
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 360 EGFYVVFDRARKRIGFAVSACH 381
>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 = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 128 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 187
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 188 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 247
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 248 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 299
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 300 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 357
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 358 EGFYVVFDRARKRIGFAVSACH 379
>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 = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 126 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 185
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 186 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 245
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 246 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 297
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 298 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 355
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 356 EGFYVVFDRARKRIGFAVSACH 377
>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 = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 172 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 231
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 232 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 291
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 292 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 343
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 344 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 401
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 402 EGFYVVFDRARKRIGFAVSACH 423
>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 = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 129 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 188
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 189 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 248
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 249 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 300
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 301 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 358
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 359 EGFYVVFDRARKRIGFAVSACH 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 = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 129 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 188
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 189 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 248
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 249 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 300
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 301 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 358
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 359 EGFYVVFDRARKRIGFAVSACH 380
>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 = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 128 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 187
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 188 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 247
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 248 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 299
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 300 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 357
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 358 EGFYVVFDRARKRIGFAVSACH 379
>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 = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 96/262 (36%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F+ G+ G+ GL + + P L Q +PN FS+
Sbjct: 112 FIQGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLQQSEVLA 171
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 172 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 231
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 232 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 283
Query: 184 PVVNLTMKGGG----------PFFVNDPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G P P+ V++ Y + + +S ++G M
Sbjct: 284 PVISLYLMGEVTQQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 341
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 342 EGFYVVFDRARKRIGFAVSACH 363
>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 = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 128 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 187
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 188 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 247
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 248 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 299
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 300 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 357
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 358 EGFYVVFDRARKRIGFAVSACH 379
>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 = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 125 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 184
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 185 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 244
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 245 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 296
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 297 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 354
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 355 EGFYVVFDRARKRIGFAVSACH 376
>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 = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 149 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 208
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 209 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 268
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 269 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 320
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 321 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 378
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 379 EGFYVVFDRARKRIGFAVSACH 400
>pdb|3R1G|B Chain B, Structure Basis Of Allosteric Inhibition Of Bace1 By An
Exosite- Binding Antibody
Length = 402
Score = 36.6 bits (83), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 116 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 175
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 176 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 235
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 236 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 287
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 288 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 345
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 346 EGFYVVFDRARKRIGFAVSACH 367
>pdb|2Q15|A Chain A, Structure Of Bace Complexed To Compound 3a
Length = 385
Score = 36.6 bits (83), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 96/262 (36%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F+ G+ G+ GL + + P L Q +PN FS+
Sbjct: 109 FIQGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLQQSEVLA 168
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 169 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 228
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 229 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 280
Query: 184 PVVNLTMKGGG----------PFFVNDPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G P P+ V++ Y + + +S ++G M
Sbjct: 281 PVISLYLMGEVTQQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 338
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 339 EGFYVVFDRARKRIGFAVSACH 360
>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 = 36.6 bits (83), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 125 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 184
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 185 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 244
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 245 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 296
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 297 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 354
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 355 EGFYVVFDRARKRIGFAVSACH 376
>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 = 36.6 bits (83), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 132 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 191
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 192 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 251
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 252 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 303
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 304 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 361
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 362 EGFYVVFDRARKRIGFAVSACH 383
>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 = 36.6 bits (83), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 149 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 208
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 209 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 268
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 269 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 320
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 321 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 378
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 379 EGFYVVFDRARKRIGFAVSACH 400
>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 = 36.2 bits (82), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 98/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 129 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 188
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 189 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 248
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 249 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 300
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 301 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSCGTVMGAVIM 358
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 359 EGFYVVFDRARKRIGFAVSACH 380
>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 = 35.8 bits (81), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 70/301 (23%), Positives = 119/301 (39%), Gaps = 70/301 (23%)
Query: 4 GFLVEDVLHLATDEKQSKSVDSRIS-----FGCGRVQTGSFL--DGAAPN--GLFGLGMD 54
G L EDVL + + ++ + ++ F C SFL G N G+ GLG
Sbjct: 109 GELGEDVLAIHATQGSTQQLGPLVTVPQFLFSCA----PSFLVQKGLPRNTQGVAGLGHA 164
Query: 55 KTSVPSILANQGLIPNSFSMCFGSDGT--GRISFGDKGSPGQGETPFSLRQ--------- 103
S+P+ LA+ + F+ C T G I FGD P ++RQ
Sbjct: 165 PISLPNQLASHFGLQRQFTTCLSRYPTSKGAIIFGD--------APNNMRQFQNQDIFHD 216
Query: 104 ---------THPTYNITITQVSVGGNAVNFEFSAI-------------FDSGTSFTYLND 141
YN+ + + + ++V F + I + T L
Sbjct: 217 LAFTPLTITLQGEYNVRVNSIRINQHSV-FPLNKISSTIVGSTSGGTMISTSTPHMVLQQ 275
Query: 142 PAYTQISETF-NSLAKEKRETSTSDLPFEYCYVLSPNQTNFEYPVVNLTM-KGGGPFF-V 198
Y ++ F L K+ + S + PF C+ + N+ N YP V+L M K GP + +
Sbjct: 276 SVYQAFTQVFAQQLPKQAQVKSVA--PFGLCF--NSNKIN-AYPSVDLVMDKPNGPVWRI 330
Query: 199 NDPIVIVSSEPKGLYLYCLGVVK---SDNVNI-IGQNFMTGYNIVFDREKNVLGWKASDC 254
+ ++V ++P + CLGV+ I +G + +VFD ++ +G+ S
Sbjct: 331 SGEDLMVQAQPG---VTCLGVMNGGMQPRAEITLGARQLEENLVVFDLARSRVGFSTSSL 387
Query: 255 Y 255
+
Sbjct: 388 H 388
>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 = 35.4 bits (80), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 57/262 (21%), Positives = 97/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 129 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 188
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 189 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 248
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SGT T L P + F + K K +ST P + C+ N +
Sbjct: 249 SGT--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 300
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S +G M
Sbjct: 301 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTCMGAVIM 358
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 359 EGFYVVFDRARKRIGFAVSACH 380
>pdb|2B42|A Chain A, Crystal Structure Of The Triticum Xylanse Inhibitor-I In
Complex With Bacillus Subtilis Xylanase
Length = 381
Score = 35.4 bits (80), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 51/232 (21%), Positives = 83/232 (35%), Gaps = 28/232 (12%)
Query: 46 NGLFGLGMDKTSVPSILANQGLIPNSFSMCFGSDGTGRISFGDKGSP------GQGETPF 99
G+ GL ++P+ +A+ + N F +C + G G FG P TP
Sbjct: 138 TGVAGLANSGLALPAQVASAQKVANRFLLCLPTGGPGVAIFGGGPVPWPQFTQSMPYTPL 197
Query: 100 SLRQTHPTYNITITQVSVGGNAVNFEFSAIFDSGT------SFTYLNDPAYTQISETF-N 152
+ P + I+ + VG V A+ G + L Y + + F
Sbjct: 198 VTKGGSPAHYISARSIVVGDTRVPVPEGALATGGVMLSTRLPYVLLRPDVYRPLMDAFTK 257
Query: 153 SLAKEKRE------TSTSDLPFEYCY---VLSPNQTNFEYPVVNLTMKGGGPFFV---ND 200
+LA + + PF CY L N + P V L + GG + + N
Sbjct: 258 ALAAQHANGAPVARAVVAVAPFGVCYDTKTLGNNLGGYAVPNVQLGLDGGSDWTMTGKNS 317
Query: 201 PIVIVSSEPKGLYLYCLGVVKSDN---VNIIGQNFMTGYNIVFDREKNVLGW 249
+ + ++ GV D I+G M + + FD EK LG+
Sbjct: 318 MVDVKQGTACVAFVEMKGVAAGDGRAPAVILGGAQMEDFVLDFDMEKKRLGF 369
>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 = 35.0 bits (79), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 56/262 (21%), Positives = 97/262 (37%), Gaps = 55/262 (20%)
Query: 39 FLDGAAPNGLFGLGMDKTSVPS--------ILANQGLIPNSFSM-------------CFG 77
F++G+ G+ GL + + P L Q +PN FS+
Sbjct: 129 FINGSNWEGILGLAYAEIARPDDSLEPFFDSLVKQTHVPNLFSLQLCGAGFPLNQSEVLA 188
Query: 78 SDGTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFS------AIFD 131
S G I G S G ++ + Y + I +V + G + + +I D
Sbjct: 189 SVGGSMIIGGIDHSLYTGSLWYTPIRREWYYEVIIVRVEINGQDLKMDCKEYNYDKSIVD 248
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKE-KRETSTSDLPFEY-------CYVLSPNQTNFEY 183
SG T L P + F + K K +ST P + C+ N +
Sbjct: 249 SGC--TNLRLP-----KKVFEAAVKSIKAASSTEKFPDGFWLGEQLVCWQAGTTPWNI-F 300
Query: 184 PVVNLTMKG---GGPFFVN-------DPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFM 233
PV++L + G F + P+ V++ Y + + +S ++G M
Sbjct: 301 PVISLYLMGEVTNQSFRITILPQQYLRPVEDVATSQDDCYKFAIS--QSSTGTVMGAVIM 358
Query: 234 TGYNIVFDREKNVLGWKASDCY 255
G+ +VFDR + +G+ S C+
Sbjct: 359 EGFYVVFDRARKRIGFAVSACH 380
>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 = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 47/201 (23%), Positives = 83/201 (41%), Gaps = 31/201 (15%)
Query: 58 VPSILANQGLI-PNSFSMCFGS--DGTGRISFGD-KGSPGQGETPFSLRQTHPTYNITIT 113
VP L QG I N++S+ S TG I FG + G+ + I++
Sbjct: 143 VPVTLKKQGKIRTNAYSLYLNSPSAETGTIIFGGVDNAKYSGKLVAEQVTSSQALTISLA 202
Query: 114 QVSVGGNAVNFEFSAIFDSGTSFTYLNDPAYTQISETFNS-LAKEKRETSTSDLPFEYCY 172
V++ G++ +F A+ DSGT+ TY Q+++ + L + R+ +Y Y
Sbjct: 203 SVNLKGSSFSFGDGALLDSGTTLTYFPSDFAAQLADKAGARLVQVARD--------QYLY 254
Query: 173 VLSPNQTNFEYPVVNLTMKGGGPFFVNDPIVIVSSEPKGLYLY------CLGVVKSDNVN 226
+ N V N F N + V P Y+Y CL ++ +
Sbjct: 255 FIDCNTDTSGTTVFN---------FGNGAKITV---PNTEYVYQNGDGTCLWGIQPSDDT 302
Query: 227 IIGQNFMTGYNIVFDREKNVL 247
I+G NF+ ++++ + N +
Sbjct: 303 ILGDNFLRHAYLLYNLDANTI 323
>pdb|1J71|A Chain A, Structure Of The Extracellular Aspartic Proteinase From
Candida Tropicalis Yeast
Length = 334
Score = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 53/236 (22%), Positives = 97/236 (41%), Gaps = 31/236 (13%)
Query: 27 ISFGCGRVQTGSFLD---GAAPNGLFGLGMDKT--------SVPSILANQGLI-PNSFSM 74
+ FG ++ F D + G+ G+G +VP L QG+I N++S+
Sbjct: 99 VGFGGISIKNQQFADVTTTSVDQGIMGIGFTADEAGYNLYDNVPVTLKKQGIINKNAYSL 158
Query: 75 CFGSD--GTGRISFGDKGSPGQGETPFSLRQTHPT-YNITITQVSVGGNAVNFEFSAIFD 131
S+ TG+I FG + T +L T + + ++ G +V+ + D
Sbjct: 159 YLNSEDASTGKIIFGGVDNAKYTGTLTALPVTSSVELRVHLGSINFDGTSVSTNADVVLD 218
Query: 132 SGTSFTYLNDPAYTQISETFNSLAKEKRETSTSDLPFEYCYVLSPNQTNFEYPVVNLTMK 191
SGT+ TY + + + + + E LP C + NF+ V +T+
Sbjct: 219 SGTTITYFSQSTADKFARIVGATWDSRNEIYR--LP--SCDLSGDAVFNFDQG-VKITV- 272
Query: 192 GGGPFFVNDPIVIVSSEPKGLYLYCLGVVKSDNVNIIGQNFMTGYNIVFDREKNVL 247
P +++ S+ Y G+ ++D NI+G NF+ IV+D + +
Sbjct: 273 ---PL---SELILKDSDSSICY---FGISRND-ANILGDNFLRRAYIVYDLDDKTI 318
>pdb|2ANL|A Chain A, X-Ray Crystal Structure Of The Aspartic Protease
Plasmepsin 4 From The Malarial Parasite Plasmodium
Malariae Bound To An Allophenylnorstatine Based
Inhibitor
pdb|2ANL|B Chain B, X-Ray Crystal Structure Of The Aspartic Protease
Plasmepsin 4 From The Malarial Parasite Plasmodium
Malariae Bound To An Allophenylnorstatine Based
Inhibitor
Length = 327
Score = 31.6 bits (70), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 50/221 (22%), Positives = 88/221 (39%), Gaps = 22/221 (9%)
Query: 42 GAAPNGLFGLGMDKTSVPSI------LANQGLIPN---SFSMCFGSDGTGRISFGD-KGS 91
A +G+ GLG S+ SI L NQ I +F + +G ++ G +
Sbjct: 117 AAEFDGILGLGWKDLSIGSIDPIVVELKNQNKIDQALFTFYLPVHDKHSGYLTIGGIEEK 176
Query: 92 PGQGETPFSLRQTHPTYNITITQVSVGGNAVNFEFSAIFDSGTSFTYLNDPAYTQISETF 151
+GE + + H + V+ G ++ + + I DSGTS T +
Sbjct: 177 FYEGELTYE-KLNHDLFWQVDLDVNFGKTSME-KANVIVDSGTS-------TITAPTSFI 227
Query: 152 NSLAKEKRETSTSDLPFEYCYVLSPNQTNFEYPVVNLTMKGGGPFFVNDPIVIVSSEPKG 211
N K+ LPF + + E+ N T +++ +P++ +
Sbjct: 228 NKFFKDLNVIKVPFLPFYITTCNNKDMPTLEFKSANNTYTLEPEYYM-EPLLDIDDTLCM 286
Query: 212 LYLYCLGVVKSDNVNIIGQNFMTGYNIVFDREKNVLGWKAS 252
LY+ + + K N I+G FM Y VFD +K +G+ +
Sbjct: 287 LYILPVDIDK--NTFILGDPFMRKYFTVFDYDKESIGFAVA 325
>pdb|1PPL|E Chain E, Crystallographic Analysis Of Transition-State Mimics Bound
To Penicillopepsin: Phosphorus-Containing Peptide
Analogues
pdb|1PPM|E Chain E, Crystallographic Analysis Of Transition-state Mimics Bound
To Penicillopepsin: Phosphorus-containing Peptide
Analogues
pdb|1APT|E Chain E, Crystallographic Analysis Of A Pepstatin Analogue Binding
To The Aspartyl Proteinase Penicillopepsin At 1.8
Angstroms Resolution
pdb|1APU|E Chain E, Crystallographic Analysis Of A Pepstatin Analogue Binding
To The Aspartyl Proteinase Penicillopepsin At 1.8
Angstroms Resolution
pdb|1APV|E Chain E, Crystallographic Analysis Of Transition State Mimics Bound
To Penicillopepsin: Difluorostatine-And
Difluorostatone-Containing Peptides
pdb|1APW|E Chain E, Crystallographic Analysis Of Transition State Mimics Bound
To Penicillopepsin: Difluorostatine-And
Difluorostatone-Containing Peptides
pdb|1PPK|E Chain E, Crystallographic Analysis Of Transition State Mimics Bound
To Penicillopepsin: Phosphorous-Containing Peptide
Analogues
pdb|1BXO|A Chain A, Acid Proteinase (Penicillopepsin) (E.C.3.4.23.20) Complex
With Phosphonate Inhibitor: Methyl
Cyclo[(2s)-2-[[(1r)-1-(N-(L-N-(3-
Methylbutanoyl)valyl-L-Aspartyl)amino)-3-Methylbut Yl]
Hydroxyphosphinyloxy]-3-(3-Aminomethyl) Phenylpropanoate
pdb|1BXQ|A Chain A, Acid Proteinase (Penicillopepsin) Complex With Phosphonate
Inhibitor.
pdb|2WEA|A Chain A, Acid Proteinase (Penicillopepsin) (E.C.3.4.23.20) Complex
With Phosphonate Inhibitor:
Methyl[cyclo-7[(2r)-((N-Valyl)
Amino)-2-(Hydroxyl-(1s)-1-Methyoxycarbonyl-2-
Phenylethoxy)
Phosphinyloxy-Ethyl]-1-Naphthaleneacetamide], Sodium
Salt
pdb|2WEB|A Chain A, Acid Proteinase (penicillopepsin) (e.c.3.4.23.20) Complex
With Phosphonate Inhibitor:
Methyl(2s)-[1-(((n-formyl)-l-
Valyl)amino-2-(2-naphthyl)ethyl)hydroxyphosphinyloxy]-3-
Phenylpropanoate, Sodium Salt
pdb|2WEC|A Chain A, Acid Proteinase (Penicillopepsin) (E.C.3.4.23.20) Complex
With Phosphonate Inhibitor: Methyl(2s)-[1-(((N-(1-
Naphthaleneacetyl))-L-Valyl)aminomethyl)hydroxy
Phosphinyloxy]-3-Phenylpropanoate, Sodium Salt
pdb|2WED|A Chain A, Acid Proteinase (penicillopepsin) (e.c.3.4.23.20) Complex
With Phosphonate Macrocyclic
Inhibitor:methyl[cyclo-7[(2r)-
((n-valyl)amino)-2-(hydroxyl-(1s)-1-methyoxycarbonyl-2-
Phenylethoxy)phosphinyloxy-ethyl]-1-
naphthaleneacetamide], Sodium Salt
pdb|3APP|A Chain A, Structure And Refinement Of Penicillopepsin At 1.8
Angstroms Resolution
Length = 323
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 29/127 (22%), Positives = 58/127 (45%), Gaps = 18/127 (14%)
Query: 126 FSAIFDSGTSFTYLNDPAYTQISETFNSLAKEKRETSTSDLPFEYCYVLSPNQTNFEYPV 185
FS I D+GT+ L+D +S+ ++ ++ +++++ Y + S N +F +
Sbjct: 208 FSGIADTGTTLLLLDDSV---VSQYYSQVSGAQQDSNAG----GYVFDCSTNLPDFSVSI 260
Query: 186 VNLTMKGGGPFFVNDPIVIVSSEPKGLYLYCLGVVKSDN---VNIIGQNFMTGYNIVFDR 242
T P +++ P G CLG ++S++ +I G F+ +VFD
Sbjct: 261 SGYT--------ATVPGSLINYGPSGDGSTCLGGIQSNSGIGFSIFGDIFLKSQYVVFDS 312
Query: 243 EKNVLGW 249
+ LG+
Sbjct: 313 DGPQLGF 319
>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 = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 35/125 (28%), Positives = 52/125 (41%), Gaps = 12/125 (9%)
Query: 24 DSRISFGCGRVQTGSFLDGAAPNGLFGLGM------DKTSVPSILANQGLIPNS-FSMCF 76
D+ FG + GSFL A +G+ GL T V + NQGL+ FS+
Sbjct: 96 DTNQIFGLSETEPGSFLYYAPFDGILGLAYPSISSSGATPVFDNIWNQGLVSQDLFSVYL 155
Query: 77 GSD---GTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFE--FSAIFD 131
+D G+ I G S G + + IT+ +++ G A+ AI D
Sbjct: 156 SADDQSGSVVIFGGIDSSYYTGSLNWVPVTVEGYWQITVDSITMNGEAIACAEGCQAIVD 215
Query: 132 SGTSF 136
+GTS
Sbjct: 216 TGTSL 220
>pdb|1FLH|A Chain A, Crystal Structure Of Human Uropepsin At 2.45 A Resolution
Length = 326
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 35/125 (28%), Positives = 52/125 (41%), Gaps = 12/125 (9%)
Query: 24 DSRISFGCGRVQTGSFLDGAAPNGLFGLGM------DKTSVPSILANQGLIPNS-FSMCF 76
D+ FG + GSFL A +G+ GL T V + NQGL+ FS+
Sbjct: 96 DTNQIFGLSETEPGSFLYYAPFDGILGLAYPSISSSGATPVFDNIWNQGLVSQDLFSVYL 155
Query: 77 GSD---GTGRISFGDKGSPGQGETPFSLRQTHPTYNITITQVSVGGNAVNFE--FSAIFD 131
+D G+ I G S G + + IT+ +++ G A+ AI D
Sbjct: 156 SADDQSGSVVIFGGIDSSYYTGSLNWVPVTVEGYWQITVDSITMNGEAIACAEGCQAIVD 215
Query: 132 SGTSF 136
+GTS
Sbjct: 216 TGTSL 220
>pdb|1UH7|A Chain A, Crystal Structure Of Rhizopuspepsin At Ph 4.6
pdb|1UH8|A Chain A, Crystal Structure Of Rhizopuspepsin At Ph 8.0
pdb|1UH9|A Chain A, Crystal Structure Of Rhizopuspepsin At Ph 7.0
Length = 325
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 35/146 (23%), Positives = 59/146 (40%), Gaps = 16/146 (10%)
Query: 97 TPFSLRQTHPTYNITITQVSVGGNAVNFEFSAIFDSGTSFTYLNDPAYTQISETFNSLAK 156
T + + + IT+ + +VG + V F I D+GT+ L + N A
Sbjct: 184 TTVPIDNSRGWWGITVDRATVGTSTVASSFDGILDTGTTLLILPN----------NIAAS 233
Query: 157 EKRETSTSDLPFEYCYVLSPNQTNFEYPVVNLTMKGGGPFFVNDPIVIVSSEPKGLYLYC 216
R SD + Y +S + + F+ V ++ G F P +V E +G +
Sbjct: 234 VARAYGASD-NGDGTYTISCDTSRFKPLVFSIN----GASFQVSPDSLVFEEFQGQCIAG 288
Query: 217 LGVVKSDNVNIIGQNFMTGYNIVFDR 242
G D IIG F+ +VF++
Sbjct: 289 FGYGNWD-FAIIGDTFLKNNYVVFNQ 313
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 27.7 bits (60), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 111 TITQVSVGGNAVNFEFSAIFDSGTSFTYLN 140
++TQ+ +GGN + + +F+ TS TYLN
Sbjct: 53 SLTQLYLGGNKLQSLPNGVFNKLTSLTYLN 82
>pdb|1LF3|A Chain A, Crystal Structure Of Plasmepsin Ii From P Falciparum In
Complex With Inhibitor Eh58
pdb|1LF4|A Chain A, Structure Of Plasmepsin Ii
pdb|1XDH|A Chain A, Structure Of Plasmepsin Ii In Complex With Pepstatin A
pdb|1XDH|B Chain B, Structure Of Plasmepsin Ii In Complex With Pepstatin A
pdb|1W6H|A Chain A, Novel Plasmepsin Ii-inhibitor Complex
pdb|1W6H|B Chain B, Novel Plasmepsin Ii-inhibitor Complex
pdb|1W6I|A Chain A, Plasmepsin Ii-Pepstatin A Complex
pdb|1W6I|C Chain C, Plasmepsin Ii-Pepstatin A Complex
Length = 331
Score = 27.7 bits (60), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 54/215 (25%), Positives = 84/215 (39%), Gaps = 26/215 (12%)
Query: 46 NGLFGLGMDKTSVPSI------LANQGLIPN---SFSMCFGSDGTGRISFGDKGSPGQGE 96
+G+ GLG S+ S+ L NQ I N +F + TG ++ G E
Sbjct: 123 DGILGLGWKDLSIGSVDPIVVELKNQNKIENALFTFYLPVHDKHTGFLTIGGIEERFY-E 181
Query: 97 TPFSLRQTHPTYNITITQVSVGGNAVNFEFSAIFDSGTSFTYLNDPAYTQISETFNSLAK 156
P + + + IT + GN + + + I DSGTS A T ++ N + +
Sbjct: 182 GPLTYEKLNHDLYWQITLDAHVGNIMLEKANCIVDSGTS-------AITVPTDFLNKMLQ 234
Query: 157 EKRETSTSDLPFEYCYVLSPNQTNFEYPVVNLTMKGGGPFFVNDPIVIVSSEPKGLYLYC 216
LPF YV N N + P T + G + + + E G L
Sbjct: 235 NLDVIKVPFLPF---YVTLCN--NSKLPTFEFTSENG-KYTLEPEYYLQHIEDVGPGLCM 288
Query: 217 LGVVKSDN---VNIIGQNFMTGYNIVFDREKNVLG 248
L ++ D I+G FM Y VFD + + +G
Sbjct: 289 LNIIGLDFPVPTFILGDPFMRKYFTVFDYDNHSVG 323
>pdb|1SME|A Chain A, Plasmepsin Ii, A Hemoglobin-Degrading Enzyme From
Plasmodium Falciparum, In Complex With Pepstatin A
pdb|1SME|B Chain B, Plasmepsin Ii, A Hemoglobin-Degrading Enzyme From
Plasmodium Falciparum, In Complex With Pepstatin A
pdb|1ME6|A Chain A, Crystal Structure Of Plasmepsin Ii, An Aspartyl Protease
From Plasmodium Falciparum, In Complex With A
Statine-Based Inhibitor
pdb|1ME6|B Chain B, Crystal Structure Of Plasmepsin Ii, An Aspartyl Protease
From Plasmodium Falciparum, In Complex With A
Statine-Based Inhibitor
pdb|1XE5|A Chain A, Structure Of Plasmepsin Ii In Complex Of An Pepstatin
Analogue
pdb|1XE5|B Chain B, Structure Of Plasmepsin Ii In Complex Of An Pepstatin
Analogue
pdb|1XE6|A Chain A, Structure Of Plasmepsin Ii In Complex Of An Pepstatin
Analogue
pdb|1XE6|B Chain B, Structure Of Plasmepsin Ii In Complex Of An Pepstatin
Analogue
pdb|2IGX|A Chain A, Achiral, Cheap And Potent Inhibitors Of Plasmepsins Ii
pdb|2IGY|A Chain A, Achiral, Cheap And Potent Inhibitors Of Plasmepsins Ii
pdb|2IGY|B Chain B, Achiral, Cheap And Potent Inhibitors Of Plasmepsins Ii
pdb|2R9B|A Chain A, Structural Analysis Of Plasmepsin 2 From Plasmodium
Falciparum Complexed With A Peptide-Based Inhibitor
pdb|2R9B|B Chain B, Structural Analysis Of Plasmepsin 2 From Plasmodium
Falciparum Complexed With A Peptide-Based Inhibitor
Length = 329
Score = 27.7 bits (60), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 54/215 (25%), Positives = 84/215 (39%), Gaps = 26/215 (12%)
Query: 46 NGLFGLGMDKTSVPSI------LANQGLIPN---SFSMCFGSDGTGRISFGDKGSPGQGE 96
+G+ GLG S+ S+ L NQ I N +F + TG ++ G E
Sbjct: 121 DGILGLGWKDLSIGSVDPIVVELKNQNKIENALFTFYLPVHDKHTGFLTIGGIEERFY-E 179
Query: 97 TPFSLRQTHPTYNITITQVSVGGNAVNFEFSAIFDSGTSFTYLNDPAYTQISETFNSLAK 156
P + + + IT + GN + + + I DSGTS A T ++ N + +
Sbjct: 180 GPLTYEKLNHDLYWQITLDAHVGNIMLEKANCIVDSGTS-------AITVPTDFLNKMLQ 232
Query: 157 EKRETSTSDLPFEYCYVLSPNQTNFEYPVVNLTMKGGGPFFVNDPIVIVSSEPKGLYLYC 216
LPF YV N N + P T + G + + + E G L
Sbjct: 233 NLDVIKVPFLPF---YVTLCN--NSKLPTFEFTSENG-KYTLEPEYYLQHIEDVGPGLCM 286
Query: 217 LGVVKSDN---VNIIGQNFMTGYNIVFDREKNVLG 248
L ++ D I+G FM Y VFD + + +G
Sbjct: 287 LNIIGLDFPVPTFILGDPFMRKYFTVFDYDNHSVG 321
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
0.317 0.135 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,012,808
Number of Sequences: 62578
Number of extensions: 441820
Number of successful extensions: 1174
Number of sequences better than 100.0: 85
Number of HSP's better than 100.0 without gapping: 54
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 1111
Number of HSP's gapped (non-prelim): 97
length of query: 320
length of database: 14,973,337
effective HSP length: 99
effective length of query: 221
effective length of database: 8,778,115
effective search space: 1939963415
effective search space used: 1939963415
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)