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= psy1713
(397 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FIP|A Chain A, Structure Of The Saga Ubp8(S144n)SGF11(1-72,
Delta-Znf)SUS1SGF73 Dub Module
pdb|4FIP|E Chain E, Structure Of The Saga Ubp8(S144n)SGF11(1-72,
Delta-Znf)SUS1SGF73 Dub Module
pdb|4FK5|A Chain A, Structure Of The Saga Ubp8(S144n)SGF11SUS1SGF73 DUB MODULE
Length = 476
Score = 95.9 bits (237), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 93/354 (26%), Positives = 153/354 (43%), Gaps = 69/354 (19%)
Query: 71 RVPAGAGLVNAINTCYLNSCLQALFHIPSFHNWLLNDTEHQTLCEKQSGYQFECLVCAMR 130
R +GL+N NTC+++S LQ L H P F ++ H C+ +S + C CA+
Sbjct: 137 RRDGLSGLINMGNTCFMSSILQCLIHNPYFIRHSMSQI-HSNNCKVRSPDK--CFSCALD 193
Query: 131 KTL---------AHCQAKSGSAIRPELIIKKLKL---IARHLEHHRQEDSHEFLTYLIEG 178
K + + S S R I L I ++L + Q+D+HEF ++I
Sbjct: 194 KIVHELYGALNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQ 253
Query: 179 IQKSYLKAIPSSNKLDSASKETTP--IYQLFGTYLRTEVTCNSCSHISTQCLFHSRLDSA 236
I +SY+ +P++ ++ A+ + ++ +F L + + C C +
Sbjct: 254 IHQSYVLDLPNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQ-------------NN 300
Query: 237 SKETTPIYQLFGTYLRTEVTCNSCSHISNLELSLDIRQSSSLDEALGHFFAKEYLGGDNL 296
SK T + L+LSLDI+ L E L F KE L N
Sbjct: 301 SKTTIDPF---------------------LDLSLDIKDKKKLYECLDSFHKKEQLKDFN- 338
Query: 297 YRCEKCGRKVEATKRFSVDKPPNVLRLQLKRFNYHGLKNSRSVQVPLHLEFGKFMHCRM- 355
Y C +C +A K+ + K P+VL LQLKRF + L N + ++ +EF +++ +
Sbjct: 339 YHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEH--LLNGSNRKLDDFIEFPTYLNMKNY 396
Query: 356 -------SHSQ------LKYKLVSAVIHHGSSPDSGHYTCIGSTSSGSYHYFDD 396
HS+ + Y+L+ V H G + + GHY S G + F+D
Sbjct: 397 CSTKEKDKHSENGKVPDIIYELIGIVSHKG-TVNEGHYIAFCKISGGQWFKFND 449
>pdb|3M99|A Chain A, Structure Of The Ubp8-Sgf11-Sgf73-Sus1 Saga Dub Module
Length = 471
Score = 94.0 bits (232), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 92/354 (25%), Positives = 153/354 (43%), Gaps = 69/354 (19%)
Query: 71 RVPAGAGLVNAINTCYLNSCLQALFHIPSFHNWLLNDTEHQTLCEKQSGYQFECLVCAMR 130
R +GL+N +TC+++S LQ L H P F ++ H C+ +S + C CA+
Sbjct: 132 RRDGLSGLINMGSTCFMSSILQCLIHNPYFIRHSMSQI-HSNNCKVRSPDK--CFSCALD 188
Query: 131 KTL---------AHCQAKSGSAIRPELIIKKLKL---IARHLEHHRQEDSHEFLTYLIEG 178
K + + S S R I L I ++L + Q+D+HEF ++I
Sbjct: 189 KIVHELYGALNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQ 248
Query: 179 IQKSYLKAIPSSNKLDSASKETTP--IYQLFGTYLRTEVTCNSCSHISTQCLFHSRLDSA 236
I +SY+ +P++ ++ A+ + ++ +F L + + C C +
Sbjct: 249 IHQSYVLDLPNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQ-------------NN 295
Query: 237 SKETTPIYQLFGTYLRTEVTCNSCSHISNLELSLDIRQSSSLDEALGHFFAKEYLGGDNL 296
SK T + L+LSLDI+ L E L F KE L N
Sbjct: 296 SKTTIDPF---------------------LDLSLDIKDKKKLYECLDSFHKKEQLKDFN- 333
Query: 297 YRCEKCGRKVEATKRFSVDKPPNVLRLQLKRFNYHGLKNSRSVQVPLHLEFGKFMHCRM- 355
Y C +C +A K+ + K P+VL LQLKRF + L N + ++ +EF +++ +
Sbjct: 334 YHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEH--LLNGSNRKLDDFIEFPTYLNMKNY 391
Query: 356 -------SHSQ------LKYKLVSAVIHHGSSPDSGHYTCIGSTSSGSYHYFDD 396
HS+ + Y+L+ V H G + + GHY S G + F+D
Sbjct: 392 CSTKEKDKHSENGKVPDIIYELIGIVSHKG-TVNEGHYIAFCKISGGQWFKFND 444
>pdb|3MHH|A Chain A, Structure Of The Saga Ubp8SGF11SUS1SGF73 DUB MODULE
pdb|3MHS|A Chain A, Structure Of The Saga Ubp8SGF11SUS1SGF73 DUB MODULE BOUND
Ubiquitin Aldehyde
pdb|4FJC|A Chain A, Structure Of The Saga Ubp8SGF11(1-72, Delta-Znf)SUS1SGF73
DUB Module
pdb|4FJC|E Chain E, Structure Of The Saga Ubp8SGF11(1-72, Delta-Znf)SUS1SGF73
DUB Module
Length = 476
Score = 93.6 bits (231), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 92/354 (25%), Positives = 153/354 (43%), Gaps = 69/354 (19%)
Query: 71 RVPAGAGLVNAINTCYLNSCLQALFHIPSFHNWLLNDTEHQTLCEKQSGYQFECLVCAMR 130
R +GL+N +TC+++S LQ L H P F ++ H C+ +S + C CA+
Sbjct: 137 RRDGLSGLINMGSTCFMSSILQCLIHNPYFIRHSMSQI-HSNNCKVRSPDK--CFSCALD 193
Query: 131 KTL---------AHCQAKSGSAIRPELIIKKLKL---IARHLEHHRQEDSHEFLTYLIEG 178
K + + S S R I L I ++L + Q+D+HEF ++I
Sbjct: 194 KIVHELYGALNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQ 253
Query: 179 IQKSYLKAIPSSNKLDSASKETTP--IYQLFGTYLRTEVTCNSCSHISTQCLFHSRLDSA 236
I +SY+ +P++ ++ A+ + ++ +F L + + C C +
Sbjct: 254 IHQSYVLDLPNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQ-------------NN 300
Query: 237 SKETTPIYQLFGTYLRTEVTCNSCSHISNLELSLDIRQSSSLDEALGHFFAKEYLGGDNL 296
SK T + L+LSLDI+ L E L F KE L N
Sbjct: 301 SKTTIDPF---------------------LDLSLDIKDKKKLYECLDSFHKKEQLKDFN- 338
Query: 297 YRCEKCGRKVEATKRFSVDKPPNVLRLQLKRFNYHGLKNSRSVQVPLHLEFGKFMHCRM- 355
Y C +C +A K+ + K P+VL LQLKRF + L N + ++ +EF +++ +
Sbjct: 339 YHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEH--LLNGSNRKLDDFIEFPTYLNMKNY 396
Query: 356 -------SHSQ------LKYKLVSAVIHHGSSPDSGHYTCIGSTSSGSYHYFDD 396
HS+ + Y+L+ V H G + + GHY S G + F+D
Sbjct: 397 CSTKEKDKHSENGKVPDIIYELIGIVSHKG-TVNEGHYIAFCKISGGQWFKFND 449
>pdb|2Y6E|A Chain A, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|B Chain B, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|C Chain C, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|D Chain D, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|E Chain E, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|F Chain F, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
Length = 367
Score = 79.7 bits (195), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 78/348 (22%), Positives = 147/348 (42%), Gaps = 43/348 (12%)
Query: 73 PAGAGLVNAINTCYLNSCLQALFHIPSFHNWLLNDT-EHQTLCEKQSGYQFECLVCAMRK 131
P GL N NT ++NS LQ L + ++ L D E + + G + E + A +
Sbjct: 6 PGLCGLGNLGNTXFMNSALQCLSNTAPLTDYFLKDEYEAEINRDNPLGMKGE-IAEAYAE 64
Query: 132 TLAHCQAKSGSAIRPELIIKKLKLIARHLEHHRQEDSHEFLTYLIEGI--------QKSY 183
+ + + + P + ++ A ++Q+DS E L +L++G+ +K Y
Sbjct: 65 LIKQMWSGRDAHVAPRMFKTQVGRFAPQFSGYQQQDSQELLAFLLDGLHEDLNRVKKKPY 124
Query: 184 LKAIPSSNKLDSA-SKET---------TPIYQLFGTYLRTEVTCNSCSHISTQCLFHSRL 233
L+ ++ + D+ +KE + I F ++ + C C+ +S
Sbjct: 125 LELKDANGRPDAVVAKEAWENHRLRNDSVIVDTFHGLFKSTLVCPECAKVSVT------F 178
Query: 234 DSASKETTPIYQLFGTYLRTEVTCNSCSHISNLELSLDIRQSSSLDEALGHFFAKEYLGG 293
D T P+ + + L+ + + +L + + F E LG
Sbjct: 179 DPFCYLTLPL----------PLKKDRVMEGPMLQPQKKKKTTVALRDCIELFTTMETLGE 228
Query: 294 DNLYRCEKCGRKVEATKRFSVDKPPNVLRLQLKRFNYHGLKNSR---SVQVPLH-LEFGK 349
+ + C C + +ATK+F + P +L + LKRF+Y+ + V+ P+ L +
Sbjct: 229 HDPWYCPNCKKHQQATKKFDLWSLPKILVVHLKRFSYNRYWRDKLDTVVEFPIRGLNMSE 288
Query: 350 FMHCRMSHSQLKYKLVSAVIHHGSSPDSGHYTCIGSTS-SGSYHYFDD 396
F+ C +S Y L++ H+G+ GHYT +G ++YFDD
Sbjct: 289 FV-CNLSARPYVYDLIAVSNHYGAM-GVGHYTAYAKNKLNGKWYYFDD 334
>pdb|3V6C|A Chain A, Crystal Structure Of Usp2 In Complex With Mutated
Ubiquitin
pdb|3V6E|A Chain A, Crystal Structure Of Usp2 And A Mutant Form Of Ubiquitin
Length = 367
Score = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 90/356 (25%), Positives = 147/356 (41%), Gaps = 60/356 (16%)
Query: 70 GRVPAG----------AGLVNAINTCYLNSCLQALFHIPSFHNWLLNDTEHQTLCEKQSG 119
G VP G AGL N NTC++NS LQ L + ++ L + L +
Sbjct: 13 GLVPRGSMNSKSAQGLAGLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNA 72
Query: 120 YQFECLVCAMRKTLAHCQAKS-GSAIRPELIIKKLKLIARHLEHHRQEDSHEFLTYLIEG 178
+ LV K + S + P +++ A + Q+D+ EFL +L++G
Sbjct: 73 HT--ALVEEFAKLIQTIWTSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDG 130
Query: 179 IQKSYLKAI--PSSN--KLDSASKETTPIYQLFGTYLRTEVTCNSCSHISTQCLFHSRLD 234
+ + P SN LD + Q++ YL
Sbjct: 131 LHNEVNRVTLRPKSNPENLDHLPDDEKG-RQMWRKYL----------------------- 166
Query: 235 SASKETTPIYQLFGTYLRTEVTCNSCSHISNL-----ELSLDIRQSS----SLDEALGHF 285
+E + I LF L++ +TC C + S + +LSL I + +L + + F
Sbjct: 167 --EREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPIAKRGYPEVTLMDCMRLF 224
Query: 286 FAKEYLGGDNLYRCEKCGRKVEATKRFSVDKPPNVLRLQLKRFNYHGLKNSR---SVQVP 342
++ L GD C +C + K+FS+ + P +L L LKRF+ ++ S+ V P
Sbjct: 225 TKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRTSKLTTFVNFP 284
Query: 343 LH-LEFGKFMHCRMSHSQLKYKLVSAVIHHGSSPDSGHYTCI-GSTSSGSYHYFDD 396
L L+ +F +H+ Y L AV +H + GHYT S +G +H F+D
Sbjct: 285 LRDLDLREFASENTNHA--VYNLY-AVSNHSGTTMGGHYTAYCRSPGTGEWHTFND 337
>pdb|2HD5|A Chain A, Usp2 In Complex With Ubiquitin
Length = 359
Score = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 86/340 (25%), Positives = 143/340 (42%), Gaps = 50/340 (14%)
Query: 76 AGLVNAINTCYLNSCLQALFHIPSFHNWLLNDTEHQTLCEKQSGYQFECLVCAMRKTLAH 135
AGL N NTC++NS LQ L + ++ L + L + + LV K +
Sbjct: 10 AGLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHT--ALVEEFAKLIQT 67
Query: 136 CQAKS-GSAIRPELIIKKLKLIARHLEHHRQEDSHEFLTYLIEGIQKSYLKAI--PSSN- 191
S + P +++ A + Q+D+ EFL +L++G+ + P SN
Sbjct: 68 IWTSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNP 127
Query: 192 -KLDSASKETTPIYQLFGTYLRTEVTCNSCSHISTQCLFHSRLDSASKETTPIYQLFGTY 250
LD + Q++ YL +E + I LF
Sbjct: 128 ENLDHLPDDEKG-RQMWRKYL-------------------------EREDSRIGDLFVGQ 161
Query: 251 LRTEVTCNSCSHISNL-----ELSLDIRQSS----SLDEALGHFFAKEYLGGDNLYRCEK 301
L++ +TC C + S + +LSL I + +L + + F ++ L GD C +
Sbjct: 162 LKSSLTCTDCGYCSTVFDPFWDLSLPIAKRGYPEVTLMDCMRLFTKEDVLDGDEKPTCCR 221
Query: 302 CGRKVEATKRFSVDKPPNVLRLQLKRFNYHGLKNSR---SVQVPLH-LEFGKFMHCRMSH 357
C + K+FS+ + P +L L LKRF+ ++ S+ V PL L+ +F +H
Sbjct: 222 CRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRTSKLTTFVNFPLRDLDLREFASENTNH 281
Query: 358 SQLKYKLVSAVIHHGSSPDSGHYTCI-GSTSSGSYHYFDD 396
+ Y L AV +H + GHYT S +G +H F+D
Sbjct: 282 A--VYNLY-AVSNHSGTTMGGHYTAYCRSPGTGEWHTFND 318
>pdb|2IBI|A Chain A, Covalent Ubiquitin-Usp2 Complex
Length = 374
Score = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 86/340 (25%), Positives = 143/340 (42%), Gaps = 50/340 (14%)
Query: 76 AGLVNAINTCYLNSCLQALFHIPSFHNWLLNDTEHQTLCEKQSGYQFECLVCAMRKTLAH 135
AGL N NTC++NS LQ L + ++ L + L + + LV K +
Sbjct: 36 AGLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHT--ALVEEFAKLIQT 93
Query: 136 CQAKS-GSAIRPELIIKKLKLIARHLEHHRQEDSHEFLTYLIEGIQKSYLKAI--PSSN- 191
S + P +++ A + Q+D+ EFL +L++G+ + P SN
Sbjct: 94 IWTSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNP 153
Query: 192 -KLDSASKETTPIYQLFGTYLRTEVTCNSCSHISTQCLFHSRLDSASKETTPIYQLFGTY 250
LD + Q++ YL +E + I LF
Sbjct: 154 ENLDHLPDDEKG-RQMWRKYL-------------------------EREDSRIGDLFVGQ 187
Query: 251 LRTEVTCNSCSHISNL-----ELSLDIRQSS----SLDEALGHFFAKEYLGGDNLYRCEK 301
L++ +TC C + S + +LSL I + +L + + F ++ L GD C +
Sbjct: 188 LKSSLTCTDCGYCSTVFDPFWDLSLPIAKRGYPEVTLMDCMRLFTKEDVLDGDAAPTCCR 247
Query: 302 CGRKVEATKRFSVDKPPNVLRLQLKRFNYHGLKNSR---SVQVPLH-LEFGKFMHCRMSH 357
C + K+FS+ + P +L L LKRF+ ++ S+ V PL L+ +F +H
Sbjct: 248 CRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRTSKLTTFVNFPLRDLDLREFASENTNH 307
Query: 358 SQLKYKLVSAVIHHGSSPDSGHYTCI-GSTSSGSYHYFDD 396
+ Y L AV +H + GHYT S +G +H F+D
Sbjct: 308 A--VYNLY-AVSNHSGTTMGGHYTAYCRSPGTGEWHTFND 344
>pdb|3N3K|A Chain A, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 396
Score = 69.3 bits (168), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 87/344 (25%), Positives = 141/344 (40%), Gaps = 46/344 (13%)
Query: 70 GRVPAGAGLVNAINTCYLNSCLQALFHIPSFHNWL-----LNDTEHQTLCEKQSGYQFEC 124
G PA GL N NTCY+NS LQ L + P ++ +D L + E
Sbjct: 57 GSGPALTGLRNLGNTCYMNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEF 116
Query: 125 LVCAMRKTLAHCQAKSGSAIRPELIIKKLKLIARHLEHHRQEDSHEFLTYLIEGIQKSYL 184
+ + K L Q + S ++ I K I + Q+DS E L +L++G+ +
Sbjct: 117 GI--IMKALWTGQYRYISPKDFKITIGK---INDQFAGYSQQDSQELLLFLMDGLHEDL- 170
Query: 185 KAIPSSNKLDSASKETTPIYQLFGTYLRTEVTCNSCSHISTQCLFHSRLDSASKETTPIY 244
NK D+ + + E H+ + I
Sbjct: 171 ------NKADNRKRYKEENNDHLDDFKAAE---------------HAWQKHKQLNESIIV 209
Query: 245 QLFGTYLRTEVTCNSCSHISN-----LELSLDIRQSS--SLDEALGHFFAKEYLGGDNLY 297
LF ++ V C +C S + LSL + +S +L + L F +E L +N +
Sbjct: 210 ALFQGQFKSTVQCLTCHKKSRTFEAFMYLSLPLASTSKCTLQDCLRLFSKEEKLTDNNRF 269
Query: 298 RCEKCGRKVEATKRFSVDKPPNVLRLQLKRFNYHGLKNSR---SVQVPL-HLEFGKFMHC 353
C C + ++ K+ + K P VL + LKRF+Y G + SV PL +L+ +++
Sbjct: 270 YCSHCRARRDSLKKIEIWKLPPVLLVHLKRFSYDGRWKQKLQTSVDFPLENLDLSQYVIG 329
Query: 354 RMSHSQLKYKLVSAVIHHGSSPDSGHYTCI-GSTSSGSYHYFDD 396
++ + KY L S H+G D GHYT + + + FDD
Sbjct: 330 PKNNLK-KYNLFSVSNHYGGL-DGGHYTAYCKNAARQRWFKFDD 371
>pdb|3MTN|A Chain A, Usp21 In Complex With A Ubiquitin-based, Usp21-specific
Inhibitor
pdb|3MTN|C Chain C, Usp21 In Complex With A Ubiquitin-based, Usp21-specific
Inhibitor
Length = 373
Score = 69.3 bits (168), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 85/347 (24%), Positives = 146/347 (42%), Gaps = 34/347 (9%)
Query: 70 GRVPAGA----GLVNAINTCYLNSCLQALFHIPSFHNWLLNDTEHQTLCEKQSGYQFECL 125
G VP G+ GL N NTC+LN+ LQ L ++ L Q E G + + L
Sbjct: 13 GLVPRGSSGHVGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQ---EVPGGGRAQEL 69
Query: 126 VCAMRKTL-AHCQAKSGSAIRPELIIKKLKLIARHLEHHRQEDSHEFLTYLIEGIQKSYL 184
A + A S A+ P + + Q+D+ EFL L+E +
Sbjct: 70 TEAFADVIGALWHPDSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLLMERLHLEIN 129
Query: 185 KAIPSSNKLDSASKETTPIYQLFGTYLRTEVTCNSCSHISTQCLFHSRLDSASKETTPIY 244
+ + + + +P + E++ + +++ ++ L+ +E + I
Sbjct: 130 RRGRRAPPILANGPVPSPPRRGGALLEEPELSDDDRANL----MWKRYLE---REDSKIV 182
Query: 245 QLFGTYLRTEVTCNSCSHISNL-----ELSLDIRQSS------SLDEALGHFFAKEYLGG 293
LF L++ + C +C + S +LSL I + SL + F +E L
Sbjct: 183 DLFVGQLKSCLKCQACGYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELES 242
Query: 294 DNLYRCEKCGRKVEATKRFSVDKPPNVLRLQLKRFNYHG---LKNSRSVQVPLH-LEFGK 349
+N C++C +K +TK+ +V + P +L L L RF+ K+S V PL L G
Sbjct: 243 ENAPVCDRCRQKTRSTKKLTVQRFPRILVLHLNRFSASRGSIKKSSVGVDFPLQRLSLGD 302
Query: 350 FMHCRMSHSQLKYKLVSAVIHHGSSPDSGHYTCIGSTSSGSYHYFDD 396
F + Y+L A+ +H S GHYT + +G +H ++D
Sbjct: 303 FASDKAGSP--VYQLY-ALCNHSGSVHYGHYTALCRCQTG-WHVYND 345
>pdb|2Y5B|A Chain A, Structure Of Usp21 In Complex With Linear
Diubiquitin-Aldehyde
pdb|2Y5B|E Chain E, Structure Of Usp21 In Complex With Linear
Diubiquitin-Aldehyde
Length = 370
Score = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 81/337 (24%), Positives = 141/337 (41%), Gaps = 30/337 (8%)
Query: 76 AGLVNAINTCYLNSCLQALFHIPSFHNWLLNDTEHQTLCEKQSGYQFECLVCAMRKTL-A 134
GL N NTC+LN+ LQ L ++ L Q E G + + L A + A
Sbjct: 17 VGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQ---EVPGGGRAQELTEAFADVIGA 73
Query: 135 HCQAKSGSAIRPELIIKKLKLIARHLEHHRQEDSHEFLTYLIEGIQKSYLKAIPSSNKLD 194
S A+ P + + Q+D+ EFL L+E + + + +
Sbjct: 74 LWHPDSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLLMERLHLEINRRGRRAPPIL 133
Query: 195 SASKETTPIYQLFGTYLRTEVTCNSCSHISTQCLFHSRLDSASKETTPIYQLFGTYLRTE 254
+ +P + E++ + +++ ++ L+ +E + I LF L++
Sbjct: 134 ANGPVPSPPRRGGALLEEPELSDDDRANL----MWKRYLE---REDSKIVDLFVGQLKSC 186
Query: 255 VTCNSCSHISNL-----ELSLDIRQSS------SLDEALGHFFAKEYLGGDNLYRCEKCG 303
+ C +C + S +LSL I + SL + F +E L +N C++C
Sbjct: 187 LKCQACGYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELESENAPVCDRCR 246
Query: 304 RKVEATKRFSVDKPPNVLRLQLKRFNYHG---LKNSRSVQVPLH-LEFGKFMHCRMSHSQ 359
+K +TK+ +V + P +L L L RF+ K+S V PL L G F +
Sbjct: 247 QKTRSTKKLTVQRFPRILVLHLNRFSASRGSIKKSSVGVDFPLQRLSLGDFASDKAGSP- 305
Query: 360 LKYKLVSAVIHHGSSPDSGHYTCIGSTSSGSYHYFDD 396
Y+L A+ +H S GHYT + +G +H ++D
Sbjct: 306 -VYQLY-ALCNHSGSVHYGHYTALCRCQTG-WHVYND 339
>pdb|3I3T|A Chain A, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|C Chain C, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|E Chain E, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|G Chain G, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
Length = 355
Score = 66.6 bits (161), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 81/337 (24%), Positives = 141/337 (41%), Gaps = 30/337 (8%)
Query: 76 AGLVNAINTCYLNSCLQALFHIPSFHNWLLNDTEHQTLCEKQSGYQFECLVCAMRKTL-A 134
GL N NTC+LN+ LQ L ++ L Q E G + + L A + A
Sbjct: 4 VGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQ---EVPGGGRAQELTEAFADVIGA 60
Query: 135 HCQAKSGSAIRPELIIKKLKLIARHLEHHRQEDSHEFLTYLIEGIQKSYLKAIPSSNKLD 194
S A+ P + + Q+D+ EFL L+E + + + +
Sbjct: 61 LWHPDSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLLMERLHLEINRRGRRAPPIL 120
Query: 195 SASKETTPIYQLFGTYLRTEVTCNSCSHISTQCLFHSRLDSASKETTPIYQLFGTYLRTE 254
+ +P + E++ + +++ ++ L+ +E + I LF L++
Sbjct: 121 ANGPVPSPPRRGGALLEEPELSDDDRANL----MWKRYLE---REDSKIVDLFVGQLKSC 173
Query: 255 VTCNSCSHISNL-----ELSLDIRQSS------SLDEALGHFFAKEYLGGDNLYRCEKCG 303
+ C +C + S +LSL I + SL + F +E L +N C++C
Sbjct: 174 LKCQACGYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELESENAPVCDRCR 233
Query: 304 RKVEATKRFSVDKPPNVLRLQLKRFNYHG---LKNSRSVQVPLH-LEFGKFMHCRMSHSQ 359
+K +TK+ +V + P +L L L RF+ K+S V PL L G F +
Sbjct: 234 QKTRSTKKLTVQRFPRILVLHLNRFSASRGSIKKSSVGVDFPLQRLSLGDFASDKAGSP- 292
Query: 360 LKYKLVSAVIHHGSSPDSGHYTCIGSTSSGSYHYFDD 396
Y+L A+ +H S GHYT + +G +H ++D
Sbjct: 293 -VYQLY-ALCNHSGSVHYGHYTALCRCQTG-WHVYND 326
>pdb|3NHE|A Chain A, High Resolution Structure (1.26a) Of Usp2a In Complex With
Ubiquitin
Length = 348
Score = 66.6 bits (161), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 85/340 (25%), Positives = 142/340 (41%), Gaps = 50/340 (14%)
Query: 76 AGLVNAINTCYLNSCLQALFHIPSFHNWLLNDTEHQTLCEKQSGYQFECLVCAMRKTLAH 135
AGL N NT ++NS LQ L + ++ L + L + + LV K +
Sbjct: 10 AGLRNLGNTXFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHT--ALVEEFAKLIQT 67
Query: 136 CQAKS-GSAIRPELIIKKLKLIARHLEHHRQEDSHEFLTYLIEGIQKSYLKAI--PSSN- 191
S + P +++ A + Q+D+ EFL +L++G+ + P SN
Sbjct: 68 IWTSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNP 127
Query: 192 -KLDSASKETTPIYQLFGTYLRTEVTCNSCSHISTQCLFHSRLDSASKETTPIYQLFGTY 250
LD + Q++ YL +E + I LF
Sbjct: 128 ENLDHLPDDEKG-RQMWRKYL-------------------------EREDSRIGDLFVGQ 161
Query: 251 LRTEVTCNSCSHISNL-----ELSLDIRQSS----SLDEALGHFFAKEYLGGDNLYRCEK 301
L++ +TC C + S + +LSL I + +L + + F ++ L GD C +
Sbjct: 162 LKSSLTCTDCGYCSTVFDPFWDLSLPIAKRGYPEVTLMDCMRLFTKEDVLDGDEKPTCCR 221
Query: 302 CGRKVEATKRFSVDKPPNVLRLQLKRFNYHGLKNSR---SVQVPLH-LEFGKFMHCRMSH 357
C + K+FS+ + P +L L LKRF+ ++ S+ V PL L+ +F +H
Sbjct: 222 CRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRTSKLTTFVNFPLRDLDLREFASENTNH 281
Query: 358 SQLKYKLVSAVIHHGSSPDSGHYTCI-GSTSSGSYHYFDD 396
+ Y L AV +H + GHYT S +G +H F+D
Sbjct: 282 A--VYNLY-AVSNHSGTTMGGHYTAYCRSPGTGEWHTFND 318
>pdb|2GFO|A Chain A, Structure Of The Catalytic Domain Of Human Ubiquitin
Carboxyl-terminal Hydrolase 8
Length = 396
Score = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 86/344 (25%), Positives = 135/344 (39%), Gaps = 46/344 (13%)
Query: 70 GRVPAGAGLVNAINTCYLNSCLQALFHIPSFHNWL-----LNDTEHQTLCEKQSGYQFEC 124
G PA GL N NTCY NS LQ L + P ++ +D L + E
Sbjct: 57 GSGPALTGLRNLGNTCYXNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEF 116
Query: 125 LVCAMRKTLAHCQAKSGSAIRPELIIKKLKLIARHLEHHRQEDSHEFLTYLIEGIQKSYL 184
+ + K L Q + S ++ I K I + Q+DS E L +L +G+ +
Sbjct: 117 GI--IXKALWTGQYRYISPKDFKITIGK---INDQFAGYSQQDSQELLLFLXDGLHEDL- 170
Query: 185 KAIPSSNKLDSASKETTPIYQLFGTYLRTEVTCNSCSHISTQCLFHSRLDSASKETTPIY 244
NK D+ + + E H+ + I
Sbjct: 171 ------NKADNRKRYKEENNDHLDDFKAAE---------------HAWQKHKQLNESIIV 209
Query: 245 QLFGTYLRTEVTCNSCSHISN-------LELSLDIRQSSSLDEALGHFFAKEYLGGDNLY 297
LF ++ V C +C S L L L +L + L F +E L +N +
Sbjct: 210 ALFQGQFKSTVQCLTCHKKSRTFEAFXYLSLPLASTSKCTLQDCLRLFSKEEKLTDNNRF 269
Query: 298 RCEKCGRKVEATKRFSVDKPPNVLRLQLKRFNYHGLKNSR---SVQVPL-HLEFGKFMHC 353
C C + ++ K+ + K P VL + LKRF+Y G + SV PL +L+ +++
Sbjct: 270 YCSHCRARRDSLKKIEIWKLPPVLLVHLKRFSYDGRWKQKLQTSVDFPLENLDLSQYVIG 329
Query: 354 RMSHSQLKYKLVSAVIHHGSSPDSGHYTCI-GSTSSGSYHYFDD 396
++ + KY L S H+G D GHYT + + + FDD
Sbjct: 330 PKNNLK-KYNLFSVSNHYGGL-DGGHYTAYCKNAARQRWFKFDD 371
>pdb|2F1Z|A Chain A, Crystal Structure Of Hausp
pdb|2F1Z|B Chain B, Crystal Structure Of Hausp
Length = 522
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 43/166 (25%), Positives = 70/166 (42%), Gaps = 13/166 (7%)
Query: 243 IYQLFGTYLRTEVTCNSCSHISN-----LELSLDIRQSSSLDEALGHFFAKEYLGGDNLY 297
I +LF + + + C + S+ ++ L I+ ++ E+ + A E L GDN Y
Sbjct: 282 IPKLFRGKMVSYIQCKEVDYRSDRREDYYDIQLSIKGKKNIFESFVDYVAVEQLDGDNKY 341
Query: 298 RCEKCGRKVEATKRFSVDKPPNVLRLQLKRFNY-----HGLKNSRSVQVPLHLEFGKFMH 352
+ G + EA K P VL LQL RF Y +K + + P L +F+
Sbjct: 342 DAGEHGLQ-EAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDEFLQ 400
Query: 353 CRMSHSQLKYKLVSAVIHHGSSPDSGHYTC-IGSTSSGSYHYFDDE 397
Y L + ++H G + GHY + G + FDD+
Sbjct: 401 KTDPKDPANYILHAVLVHSGDN-HGGHYVVYLNPKGDGKWCKFDDD 445
>pdb|1NBF|A Chain A, Crystal Structure Of A Ubp-Family Deubiquitinating Enzyme
In Isolation And In Complex With Ubiquitin Aldehyde
pdb|1NBF|B Chain B, Crystal Structure Of A Ubp-Family Deubiquitinating Enzyme
In Isolation And In Complex With Ubiquitin Aldehyde
pdb|1NBF|E Chain E, Crystal Structure Of A Ubp-Family Deubiquitinating Enzyme
In Isolation And In Complex With Ubiquitin Aldehyde
Length = 353
Score = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 43/166 (25%), Positives = 70/166 (42%), Gaps = 13/166 (7%)
Query: 243 IYQLFGTYLRTEVTCNSCSHISN-----LELSLDIRQSSSLDEALGHFFAKEYLGGDNLY 297
I +LF + + + C + S+ ++ L I+ ++ E+ + A E L GDN Y
Sbjct: 113 IPKLFRGKMVSYIQCKEVDYRSDRREDYYDIQLSIKGKKNIFESFVDYVAVEQLDGDNKY 172
Query: 298 RCEKCGRKVEATKRFSVDKPPNVLRLQLKRFNY-----HGLKNSRSVQVPLHLEFGKFMH 352
+ G + EA K P VL LQL RF Y +K + + P L +F+
Sbjct: 173 DAGEHGLQ-EAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDEFLQ 231
Query: 353 CRMSHSQLKYKLVSAVIHHGSSPDSGHYTC-IGSTSSGSYHYFDDE 397
Y L + ++H G + GHY + G + FDD+
Sbjct: 232 KTDPKDPANYILHAVLVHSGDN-HGGHYVVYLNPKGDGKWCKFDDD 276
>pdb|1NB8|A Chain A, Structure Of The Catalytic Domain Of Usp7 (Hausp)
pdb|1NB8|B Chain B, Structure Of The Catalytic Domain Of Usp7 (Hausp)
Length = 353
Score = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 41/150 (27%), Positives = 62/150 (41%), Gaps = 8/150 (5%)
Query: 254 EVTCNSCSHISNLELSLDIRQSSSLDEALGHFFAKEYLGGDNLYRCEKCGRKVEATKRFS 313
EV S ++ L I+ ++ E+ + A E L GDN Y + G + EA K
Sbjct: 129 EVDYRSDRREDYYDIQLSIKGKKNIFESFVDYVAVEQLDGDNKYDAGEHGLQ-EAEKGVK 187
Query: 314 VDKPPNVLRLQLKRFNY-----HGLKNSRSVQVPLHLEFGKFMHCRMSHSQLKYKLVSAV 368
P VL LQL RF Y +K + + P L +F+ Y L + +
Sbjct: 188 FLTLPPVLHLQLXRFXYDPQTDQNIKINDRFEFPEQLPLDEFLQKTDPKDPANYILHAVL 247
Query: 369 IHHGSSPDSGHYTC-IGSTSSGSYHYFDDE 397
+H G + GHY + G + FDD+
Sbjct: 248 VHSGDN-HGGHYVVYLNPKGDGKWCKFDDD 276
>pdb|1VJV|A Chain A, Crystal Structure Of Ubiquitin Carboxyl-terminal Hydrolase
6 (yfr010w) From Saccharomyces Cerevisiae At 1.74 A
Resolution
Length = 415
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 52/112 (46%), Gaps = 13/112 (11%)
Query: 76 AGLVNAINTCYLNSCLQALFHIPSFHNWLLNDTEHQTLCEKQSGYQFE----CLVCAMRK 131
G N NTCYLN+ LQAL+ + + +LN Q + SG Q E +V ++
Sbjct: 25 VGFKNXGNTCYLNATLQALYRVNDLRDXILNYNPSQGVS--NSGAQDEEIHKQIVIEXKR 82
Query: 132 TLAHCQAKSGSAIRPELIIKKLK-----LIARHLE--HHRQEDSHEFLTYLI 176
+ Q KS ++ P +++ L+ R + ++Q+D+ E T L
Sbjct: 83 CFENLQNKSFKSVLPVVLLNTLRKCYPQFAERDSQGGFYKQQDAEELFTQLF 134
>pdb|3IHP|A Chain A, Covalent Ubiquitin-Usp5 Complex
pdb|3IHP|B Chain B, Covalent Ubiquitin-Usp5 Complex
Length = 854
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/128 (27%), Positives = 54/128 (42%), Gaps = 18/128 (14%)
Query: 73 PAGAGLVNAINTCYLNSCLQALFHIPSFHNWLLNDTEHQTLCEKQSGYQ-FECLVCAMRK 131
P G+ N N+CYLNS +Q LF IP F ++ E Q F V +
Sbjct: 342 PGYTGIRNLGNSCYLNSVVQVLFSIPDFQRKYVDKLEKIFQNAPTDPTQDFSTQVAKLGH 401
Query: 132 TLAHCQ-----AKSGSAIR-PEL------IIKKL--KLIAR---HLEHHRQEDSHEFLTY 174
L + +SG R PE I ++ LI + +RQ+D+ EF +
Sbjct: 402 GLLSGEYSKPVPESGDGERVPEQKEVQDGIAPRMFKALIGKGHPEFSTNRQQDAQEFFLH 461
Query: 175 LIEGIQKS 182
LI ++++
Sbjct: 462 LINMVERN 469
>pdb|2AYN|A Chain A, Structure Of Usp14, A Proteasome-Associated
Deubiquitinating Enzyme
pdb|2AYN|B Chain B, Structure Of Usp14, A Proteasome-Associated
Deubiquitinating Enzyme
pdb|2AYN|C Chain C, Structure Of Usp14, A Proteasome-Associated
Deubiquitinating Enzyme
pdb|2AYO|A Chain A, Structure Of Usp14 Bound To Ubquitin Aldehyde
Length = 404
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 82/381 (21%), Positives = 137/381 (35%), Gaps = 93/381 (24%)
Query: 77 GLVNAINTCYLNSCLQALFHIPSFHNWLLNDTEHQTLCEKQSGYQFECLVCAMRKTLAHC 136
GL N NTCY+N+ +Q + +P + L + + Q+ + A + L
Sbjct: 16 GLTNLGNTCYMNATVQCIRSVPELKDALKRYAGALRASGEMASAQY---ITAALRDLFDS 72
Query: 137 QAKSGSAIRPELIIKKLKL----IARHLEHHR--QEDSHEFLTYLIEGIQKSYLKAIPSS 190
K+ S+I P ++++ L + A E + Q+D++E ++ +Q+ L+AI
Sbjct: 73 MDKTSSSIPPIILLQFLHMAFPQFAEKGEQGQYLQQDANECWIQMMRVLQQK-LEAIEDD 131
Query: 191 NKLD---------SASKETTPIYQLFGTYLRT----------EVTCNSCSHISTQCLFHS 231
+ + + SK+ + I Q FG T EVT + + C +
Sbjct: 132 SVKETDSSSASAATPSKKKSLIDQFFGVEFETTMKCTESEEEEVTKGKENQLQLSCFINQ 191
Query: 232 -----------RLDSASKETTPIYQLFGTYLRTEVTCNSCSHISNLELSLDIRQSSSLDE 280
RL + +P Q Y+++ S IS L L I+
Sbjct: 192 EVKYLFTGLKLRLQEEITKQSPTLQRNALYIKS-------SKISRLPAYLTIQ------- 237
Query: 281 ALGHFFAKEYLGGDNLYRCEKCGRKVEATKRFSVDKPPNVL--------RLQLK----RF 328
+ FF KE E KV +F P +L LQ K R
Sbjct: 238 -MVRFFYKEK---------ESVNAKVLKDVKF-----PLMLDMYELCTPELQEKMVSFRS 282
Query: 329 NYHGLKNSRSVQVP------------LHLEFGKFMHCRMSHSQLKYKLVSAVIHHGSSPD 376
+ L++ + Q P + E F S++ Y L + + H G S
Sbjct: 283 KFKDLEDKKVNQQPNTSDKKSSPQKEVKYEPFSFADDIGSNNCGYYDLQAVLTHQGRSSS 342
Query: 377 SGHYTCIGSTSSGSYHYFDDE 397
SGHY + FDD+
Sbjct: 343 SGHYVSWVKRKQDEWIKFDDD 363
>pdb|1TUE|A Chain A, The X-Ray Structure Of The Papillomavirus Helicase In
Complex With Its Molecular Matchmaker E2
pdb|1TUE|D Chain D, The X-Ray Structure Of The Papillomavirus Helicase In
Complex With Its Molecular Matchmaker E2
pdb|1TUE|F Chain F, The X-Ray Structure Of The Papillomavirus Helicase In
Complex With Its Molecular Matchmaker E2
pdb|1TUE|H Chain H, The X-Ray Structure Of The Papillomavirus Helicase In
Complex With Its Molecular Matchmaker E2
pdb|1TUE|K Chain K, The X-Ray Structure Of The Papillomavirus Helicase In
Complex With Its Molecular Matchmaker E2
pdb|1TUE|M Chain M, The X-Ray Structure Of The Papillomavirus Helicase In
Complex With Its Molecular Matchmaker E2
Length = 212
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 43/97 (44%), Gaps = 7/97 (7%)
Query: 170 EFLTYLIEGIQKSYLKAIPSSNKL---DSASKETTPIYQLFGTYLRTEVT--CNSCSHIS 224
EF+T+L G KS+LK P N L A+ + F +++ V NS SH
Sbjct: 40 EFITFL--GALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVISFVNSTSHFW 97
Query: 225 TQCLFHSRLDSASKETTPIYQLFGTYLRTEVTCNSCS 261
+ L +++ TT + F TY+R + N S
Sbjct: 98 LEPLTDTKVAMLDDATTTCWTYFDTYMRNALDGNPIS 134
>pdb|1R8X|A Chain A, Crystal Structure Of Mouse Glycine N-Methyltransferase
(Tetragonal Form)
pdb|1R8X|B Chain B, Crystal Structure Of Mouse Glycine N-Methyltransferase
(Tetragonal Form)
pdb|1R8Y|A Chain A, Crystal Structure Of Mouse Glycine N-Methyltransferase
(Monoclinic Form)
pdb|1R8Y|B Chain B, Crystal Structure Of Mouse Glycine N-Methyltransferase
(Monoclinic Form)
pdb|1R8Y|C Chain C, Crystal Structure Of Mouse Glycine N-Methyltransferase
(Monoclinic Form)
pdb|1R8Y|D Chain D, Crystal Structure Of Mouse Glycine N-Methyltransferase
(Monoclinic Form)
pdb|1R8Y|E Chain E, Crystal Structure Of Mouse Glycine N-Methyltransferase
(Monoclinic Form)
pdb|1R8Y|F Chain F, Crystal Structure Of Mouse Glycine N-Methyltransferase
(Monoclinic Form)
pdb|1R8Y|G Chain G, Crystal Structure Of Mouse Glycine N-Methyltransferase
(Monoclinic Form)
pdb|1R8Y|H Chain H, Crystal Structure Of Mouse Glycine N-Methyltransferase
(Monoclinic Form)
Length = 292
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 98 PSFHNWLLNDTEHQTLCEKQ-SGYQFECLVCAMRKTLAHCQAKSGSAIRPELIIKKLKLI 156
PSF NW++ + TL + SG F+ ++C + + AH G L +K + +
Sbjct: 105 PSFDNWVIEEANWLTLDKDVLSGDGFDAVIC-LGNSFAHLPDCKGDQSEHRLALKNIASM 163
Query: 157 AR 158
R
Sbjct: 164 VR 165
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 0.134 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,198,909
Number of Sequences: 62578
Number of extensions: 429712
Number of successful extensions: 1021
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 952
Number of HSP's gapped (non-prelim): 41
length of query: 397
length of database: 14,973,337
effective HSP length: 101
effective length of query: 296
effective length of database: 8,652,959
effective search space: 2561275864
effective search space used: 2561275864
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: 52 (24.6 bits)