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= psy5197
(564 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3K66|A Chain A, X-Ray Crystal Structure Of The E2 Domain Of C. Elegans
Apl-1
pdb|3K6B|A Chain A, X-Ray Crystal Structure Of The E2 Domain Of Apl-1 From C.
Elegans, In Complex With Sucrose Octasulfate (Sos)
Length = 239
Score = 141 bits (356), Expect = 7e-34, Method: Compositional matrix adjust.
Identities = 80/190 (42%), Positives = 113/190 (59%), Gaps = 2/190 (1%)
Query: 325 TPDPYFTHFEPKDEHHAFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRSKSPGVAED 384
+ DPYF +EH FK+A R++E HR+KV KVMK+W DLE RY + ++K P AE
Sbjct: 1 SQDPYFKIANWTNEHDDFKKAEMRMDEKHRKKVDKVMKEWGDLETRYNEQKAKDPKGAEK 60
Query: 385 FKQKMTLRFQQTVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIEALND--VS 442
FK +M RFQ+TV SLEEE + ++ +H++RV A +N+ K+DA + Y +AL
Sbjct: 61 FKSQMNARFQKTVSSLEEEHKRMRKEIEAVHEERVQAMLNEKKRDATHDYRQALATHVNK 120
Query: 443 LNTHKVQKCLQKLLRALHKDRHHTIAHYKHLLATNLDFAVKEKPMTLEHLVDIDHTINQS 502
N H V + L+ +RA KDR HT+ Y+HLL + A KP + L ID IN +
Sbjct: 121 PNKHSVLQSLKAYIRAEEKDRMHTLNRYRHLLKADSKEAAAYKPTVIHRLRYIDLRINGT 180
Query: 503 MTMLQRHPAL 512
+ ML+ P L
Sbjct: 181 LAMLRDFPDL 190
>pdb|3KTM|A Chain A, Structure Of The Heparin-Induced E1-Dimer Of The Amyloid
Pre Protein (App)
pdb|3KTM|B Chain B, Structure Of The Heparin-Induced E1-Dimer Of The Amyloid
Pre Protein (App)
pdb|3KTM|C Chain C, Structure Of The Heparin-Induced E1-Dimer Of The Amyloid
Pre Protein (App)
pdb|3KTM|D Chain D, Structure Of The Heparin-Induced E1-Dimer Of The Amyloid
Pre Protein (App)
pdb|3KTM|E Chain E, Structure Of The Heparin-Induced E1-Dimer Of The Amyloid
Pre Protein (App)
pdb|3KTM|F Chain F, Structure Of The Heparin-Induced E1-Dimer Of The Amyloid
Pre Protein (App)
pdb|3KTM|G Chain G, Structure Of The Heparin-Induced E1-Dimer Of The Amyloid
Pre Protein (App)
pdb|3KTM|H Chain H, Structure Of The Heparin-Induced E1-Dimer Of The Amyloid
Pre Protein (App)
Length = 191
Score = 121 bits (304), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 58/120 (48%), Positives = 76/120 (63%), Gaps = 1/120 (0%)
Query: 1 IYPKHDITNIVESSNYVKITNWCKVGHSKCK-HTDWVKPYRCLEGPFQSDALLVPEHCVF 59
+YP+ ITN+VE++ V I NWCK G +CK H +V PYRCL G F SDALLVP+ C F
Sbjct: 60 VYPELQITNVVEANQPVTIQNWCKRGRKQCKTHPHFVIPYRCLVGEFVSDALLVPDKCKF 119
Query: 60 DHIHNQSKCWEYERWNQTAAQSCLERDLSLRSFAMLLPCGISLFAGVEFVCCPMKDKERE 119
H C + W+ A ++C E+ +L + MLLPCGI F GVEFVCCP+ + R+
Sbjct: 120 LHQERMDVCETHLHWHTVAKETCSEKSTNLHDYGMLLPCGIDKFRGVEFVCCPLAIEGRK 179
>pdb|3NYL|A Chain A, The X-Ray Structure Of An Antiparallel Dimer Of The Human
Amyloid Precursor Protein E2 Domain
Length = 210
Score = 102 bits (255), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 67/204 (32%), Positives = 113/204 (55%), Gaps = 10/204 (4%)
Query: 325 TPDPYFTHFE-PKDE--HHAFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRSKSPGV 381
TPD + E P DE H F++A +RLE HRE++++VM++W + E + +++
Sbjct: 11 TPDAVDKYLETPGDENEHAHFQKAKERLEAKHRERMSQVMREWEEAERQAKNLPKAD--- 67
Query: 382 AEDFKQKMTLRFQQTVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIEALNDV 441
K+ + FQ+ V+SLE+E E+ QL+ H RV A +N ++ A+ YI AL V
Sbjct: 68 ----KKAVIQHFQEKVESLEQEAANERQQLVETHMARVEAMLNDRRRLALENYITALQAV 123
Query: 442 SLNTHKVQKCLQKLLRALHKDRHHTIAHYKHLLATNLDFAVKEKPMTLEHLVDIDHTINQ 501
V L+K +RA KDR HT+ H++H+ + A + + + HL I +NQ
Sbjct: 124 PPRPRHVFNMLKKYVRAEQKDRQHTLKHFEHVRMVDPKKAAQIRSQVMTHLRVIYERMNQ 183
Query: 502 SMTMLQRHPALAVKISELMQDYMQ 525
S+++L PA+A +I + + + +Q
Sbjct: 184 SLSLLYNVPAVAEEIQDEVDELLQ 207
>pdb|3UMH|A Chain A, X-Ray Structure Of The E2 Domain Of The Human Amyloid
Precursor Protein (App) In Complex With Cadmium
pdb|3UMI|A Chain A, X-Ray Structure Of The E2 Domain Of The Human Amyloid
Precursor Protein (App) In Complex With Zinc
pdb|3UMK|A Chain A, X-Ray Structure Of The E2 Domain Of The Human Amyloid
Precursor Protein (App) In Complex With Copper
Length = 211
Score = 102 bits (255), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 67/206 (32%), Positives = 114/206 (55%), Gaps = 10/206 (4%)
Query: 323 VPTPDPYFTHFE-PKDE--HHAFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRSKSP 379
+ TPD + E P DE H F++A +RLE HRE++++VM++W + E ++
Sbjct: 1 MSTPDAVDKYLETPGDENEHAHFQKAKERLEAKHRERMSQVMREWEEAE-------RQAK 53
Query: 380 GVAEDFKQKMTLRFQQTVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIEALN 439
+ + K+ + FQ+ V+SLE+E E+ QL+ H RV A +N ++ A+ YI AL
Sbjct: 54 NLPKADKKAVIQHFQEKVESLEQEAANERQQLVETHMARVEAMLNDRRRLALENYITALQ 113
Query: 440 DVSLNTHKVQKCLQKLLRALHKDRHHTIAHYKHLLATNLDFAVKEKPMTLEHLVDIDHTI 499
V V L+K +RA KDR HT+ H++H+ + A + + + HL I +
Sbjct: 114 AVPPRPRHVFNMLKKYVRAEQKDRQHTLKHFEHVRMVDPKKAAQIRSQVMTHLRVIYERM 173
Query: 500 NQSMTMLQRHPALAVKISELMQDYMQ 525
NQS+++L PA+A +I + + + +Q
Sbjct: 174 NQSLSLLYNVPAVAEEIQDEVDELLQ 199
>pdb|3NYJ|A Chain A, Crystal Structure Analysis Of App E2 Domain
Length = 207
Score = 99.4 bits (246), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 66/204 (32%), Positives = 109/204 (53%), Gaps = 10/204 (4%)
Query: 325 TPDPYFTHFE-PKDE--HHAFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRSKSPGV 381
TPD + E P DE H F++A +RLE HRE+ ++V ++W + E + +++
Sbjct: 11 TPDAVDKYLETPGDENEHAHFQKAKERLEAKHRERXSQVXREWEEAERQAKNLPKAD--- 67
Query: 382 AEDFKQKMTLRFQQTVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIEALNDV 441
K+ + FQ+ V+SLE+E E+ QL+ H RV A +N ++ A+ YI AL V
Sbjct: 68 ----KKAVIQHFQEKVESLEQEAANERQQLVETHXARVEAXLNDRRRLALENYITALQAV 123
Query: 442 SLNTHKVQKCLQKLLRALHKDRHHTIAHYKHLLATNLDFAVKEKPMTLEHLVDIDHTINQ 501
V L+K +RA KDR HT+ H++H+ + A + + HL I NQ
Sbjct: 124 PPRPRHVFNXLKKYVRAEQKDRQHTLKHFEHVRXVDPKKAAQIRSQVXTHLRVIYERXNQ 183
Query: 502 SMTMLQRHPALAVKISELMQDYMQ 525
S+++L PA+A +I + + + +Q
Sbjct: 184 SLSLLYNVPAVAEEIQDEVDELLQ 207
>pdb|3PMR|A Chain A, Crystal Structure Of E2 Domain Of Human Amyloid
Precursor-Like Protein 1
pdb|3PMR|B Chain B, Crystal Structure Of E2 Domain Of Human Amyloid
Precursor-Like Protein 1
Length = 219
Score = 91.7 bits (226), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 62/208 (29%), Positives = 108/208 (51%), Gaps = 13/208 (6%)
Query: 323 VPTPDP------YFTHFEPKDEHHAFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRS 376
PTP P YF EH F A LEE ++ +VM++W+ D +S
Sbjct: 5 TPTPRPTDGVDIYFGMPGEISEHEGFLRAKMDLEERRMRQINEVMREWA-----MADNQS 59
Query: 377 KSPGVAEDFKQKMTLRFQQTVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIE 436
K+ A+ +Q + FQ +Q+LEE+ + E+ +L+ H RV A IN ++ A+ ++
Sbjct: 60 KNLPKAD--RQALNEHFQSILQTLEEQVSGERQRLVETHATRVIALINDQRRAALEGFLA 117
Query: 437 ALNDVSLNTHKVQKCLQKLLRALHKDRHHTIAHYKHLLATNLDFAVKEKPMTLEHLVDID 496
AL +V L++ LRA K++ HT+ HY+H+ A + + A + + HL I+
Sbjct: 118 ALQADPPQAERVLLALRRYLRAEQKEQRHTLRHYQHVAAVDPEKAQQMRFQVHTHLQVIE 177
Query: 497 HTINQSMTMLQRHPALAVKISELMQDYM 524
+NQS+ +L ++P LA ++ +Q+ +
Sbjct: 178 ERVNQSLGLLDQNPHLAQELRPQIQELL 205
>pdb|3Q7G|A Chain A, Crystal Structure Of E2 Domain Of Human Amyloid
Precursor-Like Protein 1 In Complex With Sos (Sucrose
Octasulfate)
pdb|3Q7G|B Chain B, Crystal Structure Of E2 Domain Of Human Amyloid
Precursor-Like Protein 1 In Complex With Sos (Sucrose
Octasulfate)
pdb|3Q7L|A Chain A, Crystal Structure Of The E2 Domain Of Amyloid
Precursor-Like Protein 1
pdb|3Q7L|B Chain B, Crystal Structure Of The E2 Domain Of Amyloid
Precursor-Like Protein 1
pdb|3QMK|A Chain A, Crystal Structure Of The E2 Domain Of Aplp1 In Complex
With Heparin Hexasaccharide
pdb|3QMK|B Chain B, Crystal Structure Of The E2 Domain Of Aplp1 In Complex
With Heparin Hexasaccharide
Length = 214
Score = 91.7 bits (226), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 62/208 (29%), Positives = 108/208 (51%), Gaps = 13/208 (6%)
Query: 323 VPTPDP------YFTHFEPKDEHHAFKEALQRLEEMHREKVTKVMKDWSDLEERYQDMRS 376
PTP P YF EH F A LEE ++ +VM++W+ D +S
Sbjct: 5 TPTPRPTDGVDIYFGMPGEISEHEGFLRAKMDLEERRMRQINEVMREWA-----MADNQS 59
Query: 377 KSPGVAEDFKQKMTLRFQQTVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKDAMNCYIE 436
K+ A+ +Q + FQ +Q+LEE+ + E+ +L+ H RV A IN ++ A+ ++
Sbjct: 60 KNLPKAD--RQALNEHFQSILQTLEEQVSGERQRLVETHATRVIALINDQRRAALEGFLA 117
Query: 437 ALNDVSLNTHKVQKCLQKLLRALHKDRHHTIAHYKHLLATNLDFAVKEKPMTLEHLVDID 496
AL +V L++ LRA K++ HT+ HY+H+ A + + A + + HL I+
Sbjct: 118 ALQADPPQAERVLLALRRYLRAEQKEQRHTLRHYQHVAAVDPEKAQQMRFQVHTHLQVIE 177
Query: 497 HTINQSMTMLQRHPALAVKISELMQDYM 524
+NQS+ +L ++P LA ++ +Q+ +
Sbjct: 178 ERVNQSLGLLDQNPHLAQELRPQIQELL 205
>pdb|1OWT|A Chain A, Structure Of The Alzheimer's Disease Amyloid Precursor
Protein Copper Binding Domain
pdb|2FKL|A Chain A, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain (Residues 126- 189 Of App)
pdb|2FKL|B Chain B, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain (Residues 126- 189 Of App)
Length = 66
Score = 70.9 bits (172), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 32/66 (48%), Positives = 41/66 (62%)
Query: 48 SDALLVPEHCVFDHIHNQSKCWEYERWNQTAAQSCLERDLSLRSFAMLLPCGISLFAGVE 107
SDALLVP+ C F H C + W+ A ++C E+ +L + MLLPCGI F GVE
Sbjct: 1 SDALLVPDKCKFLHQERMDVCETHLHWHTVAKETCSEKSTNLHDYGMLLPCGIDKFRGVE 60
Query: 108 FVCCPM 113
FVCCP+
Sbjct: 61 FVCCPL 66
>pdb|2LP1|A Chain A, The Solution Nmr Structure Of The Transmembrane C-Terminal
Domain Of The Amyloid Precursor Protein (C99)
Length = 122
Score = 69.3 bits (168), Expect = 6e-12, Method: Composition-based stats.
Identities = 32/80 (40%), Positives = 48/80 (60%), Gaps = 9/80 (11%)
Query: 206 GDSKGVYVTVVFAGLAVMAAVFIAMTVLKRRSARSPQNLCNVFFYFQGFIEVDQAATPEE 265
G +KG + ++ G+ + + I + +LK++ S + G +EVD A TPEE
Sbjct: 26 GSNKGAIIGLMVGGVVIATVIVITLVMLKKKQYTSIHH---------GVVEVDAAVTPEE 76
Query: 266 RHVANMQINGYENPTYKYFE 285
RH++ MQ NGYENPTYK+FE
Sbjct: 77 RHLSKMQQNGYENPTYKFFE 96
>pdb|2FJZ|A Chain A, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain (Residues 133 To 189) In
'small Unit Cell' Form, Metal-Free
pdb|2FK1|A Chain A, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain In 'small Unit Cell' Form,
Cu(Ii)-Bound
pdb|2FK2|A Chain A, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain In 'small Unit Cell' Form,
Cu(I)-Bound
pdb|2FK3|A Chain A, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain In 'large Unit Cell' Form
pdb|2FK3|B Chain B, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain In 'large Unit Cell' Form
pdb|2FK3|C Chain C, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain In 'large Unit Cell' Form
pdb|2FK3|D Chain D, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain In 'large Unit Cell' Form
pdb|2FK3|E Chain E, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain In 'large Unit Cell' Form
pdb|2FK3|F Chain F, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain In 'large Unit Cell' Form
pdb|2FK3|G Chain G, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain In 'large Unit Cell' Form
pdb|2FK3|H Chain H, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain In 'large Unit Cell' Form
pdb|2FMA|A Chain A, Structure Of The Alzheimer's Amyloid Precursor Protein
(App) Copper Binding Domain In 'small Unit Cell' Form,
Atomic Resolution
Length = 59
Score = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 26/59 (44%), Positives = 34/59 (57%)
Query: 55 EHCVFDHIHNQSKCWEYERWNQTAAQSCLERDLSLRSFAMLLPCGISLFAGVEFVCCPM 113
E C F H C + W+ A ++C E+ +L + MLLPCGI F GVEFVCCP+
Sbjct: 1 EACKFLHQERMDVCETHLHWHTVAKETCSEKSTNLHDYGMLLPCGIDKFRGVEFVCCPL 59
>pdb|1TKN|A Chain A, Solution Structure Of Cappd, An Independently Folded
Extracellular Domain Of Human Amyloid-Beta Precursor
Protein
Length = 110
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 59/108 (54%)
Query: 418 RVAARINQHKKDAMNCYIEALNDVSLNTHKVQKCLQKLLRALHKDRHHTIAHYKHLLATN 477
RV A +N ++ A+ YI AL V V L+K +RA KDR HT+ H++H+ +
Sbjct: 1 RVEAMLNDRRRLALENYITALQAVPPRPRHVFNMLKKYVRAEQKDRQHTLKHFEHVRMVD 60
Query: 478 LDFAVKEKPMTLEHLVDIDHTINQSMTMLQRHPALAVKISELMQDYMQ 525
A + + + HL I +NQS+++L PA+A +I + + + +Q
Sbjct: 61 PKKAAQIRSQVMTHLRVIYERMNQSLSLLYNVPAVAEEIQDEVDELLQ 108
>pdb|1MWP|A Chain A, N-Terminal Domain Of The Amyloid Precursor Protein
Length = 96
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/47 (53%), Positives = 32/47 (68%), Gaps = 1/47 (2%)
Query: 1 IYPKHDITNIVESSNYVKITNWCKVGHSKCK-HTDWVKPYRCLEGPF 46
+YP+ ITN+VE++ V I NWCK G +CK H +V PYRCL G F
Sbjct: 49 VYPELQITNVVEANQPVTIQNWCKRGRKQCKTHPHFVIPYRCLVGEF 95
>pdb|2YT0|A Chain A, Solution Structure Of The Chimera Of The C-Terminal Tail
Peptide Of App And The C-Terminal Pid Domain Of Fe65l
Length = 176
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 21/28 (75%), Positives = 24/28 (85%)
Query: 258 DQAATPEERHVANMQINGYENPTYKYFE 285
D A TPEERH++ MQ NGYENPTYK+FE
Sbjct: 8 DAAVTPEERHLSKMQQNGYENPTYKFFE 35
>pdb|2YT1|A Chain A, Solution Structure Of The Chimera Of The C-Terminal Tail
Peptide Of App And The C-Terminal Pid Domain Of Fe65l
Length = 185
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 21/28 (75%), Positives = 24/28 (85%)
Query: 258 DQAATPEERHVANMQINGYENPTYKYFE 285
D A TPEERH++ MQ NGYENPTYK+FE
Sbjct: 8 DAAVTPEERHLSKMQQNGYENPTYKFFE 35
>pdb|2YSZ|A Chain A, Solution Structure Of The Chimera Of The C-Terminal Pid
Domain Of Fe65l And The C-Terminal Tail Peptide Of App
Length = 185
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 21/28 (75%), Positives = 24/28 (85%)
Query: 258 DQAATPEERHVANMQINGYENPTYKYFE 285
D A TPEERH++ MQ NGYENPTYK+FE
Sbjct: 154 DAAVTPEERHLSKMQQNGYENPTYKFFE 181
>pdb|3DXC|B Chain B, Crystal Structure Of The Intracellular Domain Of Human App
In Complex With Fe65-Ptb2
pdb|3DXC|D Chain D, Crystal Structure Of The Intracellular Domain Of Human App
In Complex With Fe65-Ptb2
Length = 35
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/29 (72%), Positives = 25/29 (86%)
Query: 257 VDQAATPEERHVANMQINGYENPTYKYFE 285
+D A TPEERH++ MQ NGYENPTYK+FE
Sbjct: 3 MDAAVTPEERHLSKMQQNGYENPTYKFFE 31
>pdb|2ROZ|A Chain A, Structure Of The C-Terminal Pid Domain Of Fe65l1 Complexed
With The Cytoplasmic Tail Of App Reveals A Novel Peptide
Binding Mode
Length = 32
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/28 (75%), Positives = 24/28 (85%)
Query: 258 DQAATPEERHVANMQINGYENPTYKYFE 285
D A TPEERH++ MQ NGYENPTYK+FE
Sbjct: 1 DAAVTPEERHLSKMQQNGYENPTYKFFE 28
>pdb|3DXE|B Chain B, Crystal Structure Of The Intracellular Domain Of Human App
(T668a Mutant) In Complex With Fe65-Ptb2
pdb|3DXE|D Chain D, Crystal Structure Of The Intracellular Domain Of Human App
(T668a Mutant) In Complex With Fe65-Ptb2
Length = 35
Score = 49.3 bits (116), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 20/29 (68%), Positives = 24/29 (82%)
Query: 257 VDQAATPEERHVANMQINGYENPTYKYFE 285
+D A PEERH++ MQ NGYENPTYK+FE
Sbjct: 3 MDAAVAPEERHLSKMQQNGYENPTYKFFE 31
>pdb|3DXD|B Chain B, Crystal Structure Of The Intracellular Domain Of Human App
(T668e Mutant) In Complex With Fe65-Ptb2
pdb|3DXD|D Chain D, Crystal Structure Of The Intracellular Domain Of Human App
(T668e Mutant) In Complex With Fe65-Ptb2
Length = 35
Score = 48.9 bits (115), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 20/29 (68%), Positives = 24/29 (82%)
Query: 257 VDQAATPEERHVANMQINGYENPTYKYFE 285
+D A PEERH++ MQ NGYENPTYK+FE
Sbjct: 3 MDAAVEPEERHLSKMQQNGYENPTYKFFE 31
>pdb|1H2G|B Chain B, Altered Substrate Specificity Mutant Of Penicillin Acylase
Length = 557
Score = 32.3 bits (72), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 51/116 (43%), Gaps = 12/116 (10%)
Query: 172 YSSQRHDTVQPAYAMSHDLSIGEPSYLRHEVRPRGDSKGVYVTV-VFAGL----AVMAAV 226
YS+ ++T Q S ++S+G + + +E +GD + V +FAG V+AA+
Sbjct: 371 YSASGYETTQDGPTGSLNISVG--AKILYEAV-QGDKSPIPQAVDLFAGKPQQEVVLAAL 427
Query: 227 FIAMTVLKRRSARSPQNL----CNVFFYFQGFIEVDQAATPEERHVANMQINGYEN 278
L +R + N + F F V QAA E RH A Q G EN
Sbjct: 428 EDTWETLSKRYGNNVSNWKTPAMALTFRANNFFGVPQAAAEETRHQAEYQNRGTEN 483
>pdb|1PNK|B Chain B, Penicillin Acylase Has A Single-amino-acid Catalytic
Centre
pdb|1PNL|B Chain B, Penicillin Acylase Has A Single-amino-acid Catalytic
Centre
pdb|1PNM|B Chain B, Penicillin Acylase Has A Single-Amino-Acid Catalytic
Centre
pdb|1GM9|B Chain B, Crystal Structures Of Penicillin Acylase Enzyme-Substrate
Complexes: Structural Insights Into The Catalytic
Mechanism
pdb|1GK9|B Chain B, Crystal Structures Of Penicillin Acylase Enzyme-Substrate
Complexes: Structural Insights Into The Catalytic
Mechanism
pdb|1K7D|B Chain B, Penicillin Acylase With Phenyl Proprionic Acid
Length = 557
Score = 32.3 bits (72), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 51/116 (43%), Gaps = 12/116 (10%)
Query: 172 YSSQRHDTVQPAYAMSHDLSIGEPSYLRHEVRPRGDSKGVYVTV-VFAGL----AVMAAV 226
YS+ ++T Q S ++S+G + + +E +GD + V +FAG V+AA+
Sbjct: 371 YSASGYETTQDGPTGSLNISVG--AKILYEAV-QGDKSPIPQAVDLFAGKPQQEVVLAAL 427
Query: 227 FIAMTVLKRRSARSPQNL----CNVFFYFQGFIEVDQAATPEERHVANMQINGYEN 278
L +R + N + F F V QAA E RH A Q G EN
Sbjct: 428 EDTWETLSKRYGNNVSNWKTPAMALTFRANNFFGVPQAAAEETRHQAEYQNRGTEN 483
>pdb|1JX9|B Chain B, Penicillin Acylase, Mutant
pdb|1K5Q|B Chain B, Penicillin Acylase, Mutant Complexed With Paa
pdb|1K5S|B Chain B, Penicillin Acylase, Mutant Complexed With Ppa
Length = 557
Score = 32.3 bits (72), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 51/116 (43%), Gaps = 12/116 (10%)
Query: 172 YSSQRHDTVQPAYAMSHDLSIGEPSYLRHEVRPRGDSKGVYVTV-VFAGL----AVMAAV 226
YS+ ++T Q S ++S+G + + +E +GD + V +FAG V+AA+
Sbjct: 371 YSASGYETTQDGPTGSLNISVG--AKILYEAV-QGDKSPIPQAVDLFAGKPQQEVVLAAL 427
Query: 227 FIAMTVLKRRSARSPQNL----CNVFFYFQGFIEVDQAATPEERHVANMQINGYEN 278
L +R + N + F F V QAA E RH A Q G EN
Sbjct: 428 EDTWETLSKRYGNNVSNWKTPAMALTFRANNFFGVPQAAAEETRHQAEYQNRGTEN 483
>pdb|1AI4|B Chain B, Penicillin Acylase Complexed With
3,4-Dihydroxyphenylacetic Acid
pdb|1AI5|B Chain B, Penicillin Acylase Complexed With M-Nitrophenylacetic Acid
pdb|1AI6|B Chain B, Penicillin Acylase With P-Hydroxyphenylacetic Acid
pdb|1AI7|B Chain B, Penicillin Acylase Complexed With Phenol
pdb|1AJN|B Chain B, Penicillin Acylase Complexed With P-Nitrophenylacetic Acid
pdb|1AJP|B Chain B, Penicillin Acylase Complexed With
2,5-Dihydroxyphenylacetic Acid
pdb|1AJQ|B Chain B, Penicillin Acylase Complexed With Thiopheneacetic Acid
Length = 557
Score = 32.3 bits (72), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 51/116 (43%), Gaps = 12/116 (10%)
Query: 172 YSSQRHDTVQPAYAMSHDLSIGEPSYLRHEVRPRGDSKGVYVTV-VFAGL----AVMAAV 226
YS+ ++T Q S ++S+G + + +E +GD + V +FAG V+AA+
Sbjct: 371 YSASGYETTQDGPTGSLNISVG--AKILYEAV-QGDKSPIPQAVDLFAGKPQQEVVLAAL 427
Query: 227 FIAMTVLKRRSARSPQNL----CNVFFYFQGFIEVDQAATPEERHVANMQINGYEN 278
L +R + N + F F V QAA E RH A Q G EN
Sbjct: 428 EDTWETLSKRYGNNVSNWKTPAMALTFRANNFFGVPQAAAEETRHQAEYQNRGTEN 483
>pdb|1E3A|B Chain B, A Slow Processing Precursor Penicillin Acylase From
Escherichia Coli
Length = 560
Score = 32.3 bits (72), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 51/116 (43%), Gaps = 12/116 (10%)
Query: 172 YSSQRHDTVQPAYAMSHDLSIGEPSYLRHEVRPRGDSKGVYVTV-VFAGL----AVMAAV 226
YS+ ++T Q S ++S+G + + +E +GD + V +FAG V+AA+
Sbjct: 374 YSASGYETTQDGPTGSLNISVG--AKILYEAV-QGDKSPIPQAVDLFAGKPQQEVVLAAL 430
Query: 227 FIAMTVLKRRSARSPQNL----CNVFFYFQGFIEVDQAATPEERHVANMQINGYEN 278
L +R + N + F F V QAA E RH A Q G EN
Sbjct: 431 EDTWETLSKRYGNNVSNWKTPAMALTFRANNFFGVPQAAAEETRHQAEYQNRGTEN 486
>pdb|1FXH|B Chain B, Mutant Of Penicillin Acylase Impaired In Catalysis With
Phenylacetic Acid In The Active Site
pdb|1FXV|B Chain B, Penicillin Acylase Mutant Impaired In Catalysis With
Penicillin G In The Active Site
Length = 557
Score = 32.3 bits (72), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 51/116 (43%), Gaps = 12/116 (10%)
Query: 172 YSSQRHDTVQPAYAMSHDLSIGEPSYLRHEVRPRGDSKGVYVTV-VFAGL----AVMAAV 226
YS+ ++T Q S ++S+G + + +E +GD + V +FAG V+AA+
Sbjct: 371 YSASGYETTQDGPTGSLNISVG--AKILYEAV-QGDKSPIPQAVDLFAGKPQQEVVLAAL 427
Query: 227 FIAMTVLKRRSARSPQNL----CNVFFYFQGFIEVDQAATPEERHVANMQINGYEN 278
L +R + N + F F V QAA E RH A Q G EN
Sbjct: 428 EDTWETLSKRYGNNVSNWKTPAMALTFRANNFFGVPQAAAEETRHQAEYQNRGTEN 483
>pdb|1KEC|B Chain B, Penicillin Acylase Mutant With Phenyl Proprionic Acid
Length = 557
Score = 32.0 bits (71), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 51/116 (43%), Gaps = 12/116 (10%)
Query: 172 YSSQRHDTVQPAYAMSHDLSIGEPSYLRHEVRPRGDSKGVYVTV-VFAGL----AVMAAV 226
YS+ ++T Q S ++S+G + + +E +GD + V +FAG V+AA+
Sbjct: 371 YSASGYETTQDGPTGSLNISVG--AKILYEAV-QGDKSPIPQAVDLFAGKPQQEVVLAAL 427
Query: 227 FIAMTVLKRRSARSPQNL----CNVFFYFQGFIEVDQAATPEERHVANMQINGYEN 278
L +R + N + F F V QAA E RH A Q G EN
Sbjct: 428 EDTWETLSKRYGNNVSNWKTPAMALTFRANNFFGVPQAAAEETRHQAEYQNRGTEN 483
>pdb|1GM8|B Chain B, Crystal Structures Of Penicillin Acylase Enzyme-Substrate
Complexes: Structural Insights Into The Catalytic
Mechanism
pdb|1GM7|B Chain B, Crystal Structures Of Penicillin Acylase Enzyme-Substrate
Complexes: Structural Insights Into The Catalytic
Mechanism
pdb|1GKF|B Chain B, Crystal Structures Of Penicillin Acylase Enzyme-Substrate
Complexes: Structural Insights Into The Catalytic
Mechanism
Length = 557
Score = 32.0 bits (71), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 51/116 (43%), Gaps = 12/116 (10%)
Query: 172 YSSQRHDTVQPAYAMSHDLSIGEPSYLRHEVRPRGDSKGVYVTV-VFAGL----AVMAAV 226
YS+ ++T Q S ++S+G + + +E +GD + V +FAG V+AA+
Sbjct: 371 YSASGYETTQDGPTGSLNISVG--AKILYEAV-QGDKSPIPQAVDLFAGKPQQEVVLAAL 427
Query: 227 FIAMTVLKRRSARSPQNL----CNVFFYFQGFIEVDQAATPEERHVANMQINGYEN 278
L +R + N + F F V QAA E RH A Q G EN
Sbjct: 428 EDTWETLSKRYGNNVSNWKTPAMALTFRANNFFGVPQAAAEETRHQAEYQNRGTEN 483
>pdb|1X11|C Chain C, X11 Ptb Domain
pdb|1X11|D Chain D, X11 Ptb Domain
Length = 13
Score = 29.6 bits (65), Expect = 4.9, Method: Composition-based stats.
Identities = 11/12 (91%), Positives = 12/12 (100%)
Query: 274 NGYENPTYKYFE 285
NGYENPTYK+FE
Sbjct: 2 NGYENPTYKFFE 13
>pdb|3AHM|A Chain A, Pz Peptidase A
pdb|3AHM|B Chain B, Pz Peptidase A
pdb|3AHN|A Chain A, Pz Peptidase A With Inhibitor 1
pdb|3AHN|B Chain B, Pz Peptidase A With Inhibitor 1
pdb|3AHO|A Chain A, Pz Peptidase A With Inhibitor 2
pdb|3AHO|B Chain B, Pz Peptidase A With Inhibitor 2
Length = 564
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 36/82 (43%), Gaps = 16/82 (19%)
Query: 370 RYQDMRSKSPGVAEDFKQKMTLRFQQTVQSLEEEGNAEKHQLIVMHQQRVAARINQHKKD 429
++ + R + P + +K+ FQQ +QS ++ NAE+ Q INQ + D
Sbjct: 2 KFSEFRYERPNI-----EKLKASFQQALQSFQKASNAEE-------QNEAMKEINQLRND 49
Query: 430 ----AMNCYIEALNDVSLNTHK 447
A CYI D + +K
Sbjct: 50 FSTMAQICYIRHTIDTNDEFYK 71
>pdb|2QUP|A Chain A, Crystal Structure Of Uncharacterized Protein Bh1478 From
Bacillus Halodurans
Length = 145
Score = 29.3 bits (64), Expect = 6.2, Method: Composition-based stats.
Identities = 23/58 (39%), Positives = 29/58 (50%), Gaps = 10/58 (17%)
Query: 507 QRHPALAVKISELM--------QDYMQALRSKDETPGSLLSLTREAEEAILDKYKAQV 556
++ A V SE+M + +QAL SK + G LLS TR EE L KYK V
Sbjct: 18 KQQTAAGVSFSEVMGKQRDEKAYERLQALMSKIDDQGKLLSETRTIEE--LRKYKELV 73
>pdb|3SV1|D Chain D, Crystal Structure Of App Peptide Bound Rat Mint2 Parm
pdb|3SV1|E Chain E, Crystal Structure Of App Peptide Bound Rat Mint2 Parm
pdb|3SV1|F Chain F, Crystal Structure Of App Peptide Bound Rat Mint2 Parm
Length = 14
Score = 28.9 bits (63), Expect = 7.6, Method: Composition-based stats.
Identities = 11/12 (91%), Positives = 12/12 (100%)
Query: 274 NGYENPTYKYFE 285
NGYENPTYK+FE
Sbjct: 2 NGYENPTYKFFE 13
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
0.320 0.133 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,416,497
Number of Sequences: 62578
Number of extensions: 567881
Number of successful extensions: 1746
Number of sequences better than 100.0: 36
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1710
Number of HSP's gapped (non-prelim): 36
length of query: 564
length of database: 14,973,337
effective HSP length: 104
effective length of query: 460
effective length of database: 8,465,225
effective search space: 3894003500
effective search space used: 3894003500
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)