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= 008741
(555 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 106/384 (27%), Positives = 169/384 (44%), Gaps = 68/384 (17%)
Query: 203 GLINSGNLCFLNATLQALMSCSPFVQ-LLQELRTRDIPKAGYPTLTAFVGFVSDFDTPSG 261
GL N GN F+N+ LQ L + +P L++ +I + D P G
Sbjct: 10 GLGNLGNTXFMNSALQCLSNTAPLTDYFLKDEYEAEINR----------------DNPLG 53
Query: 262 -----GSSKKKNISVLDIGRP--FSPSMFEAVLKNFTPDVPNSISGRPRQEDAQEFLSFI 314
+ + I + GR +P MF+ + F P SG +Q+D+QE L+F+
Sbjct: 54 MKGEIAEAYAELIKQMWSGRDAHVAPRMFKTQVGRFAP----QFSGY-QQQDSQELLAFL 108
Query: 315 MDQMHDELLKLQG----ESTSINGANTALVSLAEEDEWETVGPKNKSAVTRTQSFLPSAL 370
+D +H++L +++ E NG A+V+ ++ WE +N S +
Sbjct: 109 LDGLHEDLNRVKKKPYLELKDANGRPDAVVA---KEAWENHRLRNDSVIV---------- 155
Query: 371 SDIFGGQLKS-VVKAQGNKASATVQPFLLLHLDIYSEAVHTIE----------------- 412
D F G KS +V + K S T PF L L + + +E
Sbjct: 156 -DTFHGLFKSTLVCPECAKVSVTFDPFCYLTLPLPLKKDRVMEGPMLQPQKKKKTTVALR 214
Query: 413 DALRLFSAPENLEGYRTSSTGNAGV-VTAKKSVKIQTLSKILILHLMRFSYGSQGSTKLH 471
D + LF+ E L + N A K + +L KIL++HL RFSY KL
Sbjct: 215 DCIELFTTMETLGEHDPWYCPNCKKHQQATKKFDLWSLPKILVVHLKRFSYNRYWRDKLD 274
Query: 472 KSVRFPLQLVLGRDLLVTPSAEGRKYELVATVTHHGRDPSKGHYTADAR-YFNDQWLHFD 530
V FP++ + + + SA Y+L+A H+G GHYTA A+ N +W +FD
Sbjct: 275 TVVEFPIRGLNMSEFVCNLSARPYVYDLIAVSNHYGA-MGVGHYTAYAKNKLNGKWYYFD 333
Query: 531 DASVTAIGTSKVLHDQAYVLFYKQ 554
D++V+ +++ AYVLFY++
Sbjct: 334 DSNVSLASEDQIVTKAAYVLFYQR 357
>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 = 113 bits (282), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 117/381 (30%), Positives = 169/381 (44%), Gaps = 47/381 (12%)
Query: 184 VPMKAINEPVKSVKDLLPRGLINSGNLCFLNATLQALMSCSPFVQ-LLQELRTRDIPKAG 242
VP ++N KS + L GL N GN CF+N+ LQ L + LQ L RD+
Sbjct: 15 VPRGSMNS--KSAQGLA--GLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGS 70
Query: 243 YPTLTAFVGFVSDFDTPSGGSSKKKNISVLDIGRP---FSPSMFEAVLKNFTPDVPNSIS 299
A V +F K I + P SPS F+ ++ + P
Sbjct: 71 ----NAHTALVEEF---------AKLIQTIWTSSPNDVVSPSEFKTQIQRYAPRFVGY-- 115
Query: 300 GRPRQEDAQEFLSFIMDQMHDELLKLQGESTSINGANTALVSLAEEDEWETVGPKNKSAV 359
Q+DAQEFL F++D +H+E+ ++ S N + +DE K +
Sbjct: 116 ---NQQDAQEFLRFLLDGLHNEVNRVTLRPKS----NPENLDHLPDDE------KGRQMW 162
Query: 360 TRTQSFLPSALSDIFGGQLKSVVKAQGNKASATV-QPFLLLHLDI----YSEAVHTIEDA 414
+ S + D+F GQLKS + +TV PF L L I Y E T+ D
Sbjct: 163 RKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPIAKRGYPEV--TLMDC 220
Query: 415 LRLFSAPENLEG-YRTSSTGNAGVVTAKKSVKIQTLSKILILHLMRFSYGSQGSTKLHKS 473
+RLF+ + L+G + + G K IQ KIL+LHL RFS ++KL
Sbjct: 221 MRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRTSKLTTF 280
Query: 474 VRFPLQLVLGRDLLVTPSAEGRKYELVATVTHHGRDPSKGHYTADARY-FNDQWLHFDDA 532
V FPL+ + R+ + + Y L A H G GHYTA R +W F+D+
Sbjct: 281 VNFPLRDLDLRE-FASENTNHAVYNLYAVSNHSG-TTMGGHYTAYCRSPGTGEWHTFNDS 338
Query: 533 SVTAIGTSKVLHDQAYVLFYK 553
SVT + +S+V AY+LFY+
Sbjct: 339 SVTPMSSSQVRTSDAYLLFYE 359
>pdb|2HD5|A Chain A, Usp2 In Complex With Ubiquitin
Length = 359
Score = 113 bits (282), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 111/362 (30%), Positives = 160/362 (44%), Gaps = 43/362 (11%)
Query: 203 GLINSGNLCFLNATLQALMSCSPFVQ-LLQELRTRDIPKAGYPTLTAFVGFVSDFDTPSG 261
GL N GN CF+N+ LQ L + LQ L RD+ A V +F
Sbjct: 11 GLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGS----NAHTALVEEF----- 61
Query: 262 GSSKKKNISVLDIGRP---FSPSMFEAVLKNFTPDVPNSISGRPRQEDAQEFLSFIMDQM 318
K I + P SPS F+ ++ + P Q+DAQEFL F++D +
Sbjct: 62 ----AKLIQTIWTSSPNDVVSPSEFKTQIQRYAPRFVGY-----NQQDAQEFLRFLLDGL 112
Query: 319 HDELLKLQGESTSINGANTALVSLAEEDEWETVGPKNKSAVTRTQSFLPSALSDIFGGQL 378
H+E+ ++ S N + +DE K + + S + D+F GQL
Sbjct: 113 HNEVNRVTLRPKS----NPENLDHLPDDE------KGRQMWRKYLEREDSRIGDLFVGQL 162
Query: 379 KSVVKAQGNKASATV-QPFLLLHLDI----YSEAVHTIEDALRLFSAPENLEG-YRTSST 432
KS + +TV PF L L I Y E T+ D +RLF+ + L+G + +
Sbjct: 163 KSSLTCTDCGYCSTVFDPFWDLSLPIAKRGYPEV--TLMDCMRLFTKEDVLDGDEKPTCC 220
Query: 433 GNAGVVTAKKSVKIQTLSKILILHLMRFSYGSQGSTKLHKSVRFPLQLVLGRDLLVTPSA 492
G K IQ KIL+LHL RFS ++KL V FPL+ + R+ + +
Sbjct: 221 RCRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRTSKLTTFVNFPLRDLDLRE-FASENT 279
Query: 493 EGRKYELVATVTHHGRDPSKGHYTADARY-FNDQWLHFDDASVTAIGTSKVLHDQAYVLF 551
Y L A H G GHYTA R +W F+D+SVT + +S+V AY+LF
Sbjct: 280 NHAVYNLYAVSNHSG-TTMGGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLF 338
Query: 552 YK 553
Y+
Sbjct: 339 YE 340
>pdb|2IBI|A Chain A, Covalent Ubiquitin-Usp2 Complex
Length = 374
Score = 112 bits (281), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 110/362 (30%), Positives = 158/362 (43%), Gaps = 43/362 (11%)
Query: 203 GLINSGNLCFLNATLQALMSCSPFVQ-LLQELRTRDIPKAGYPTLTAFVGFVSDFDTPSG 261
GL N GN CF+N+ LQ L + LQ L RD+ A V +F
Sbjct: 37 GLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGS----NAHTALVEEF----- 87
Query: 262 GSSKKKNISVLDIGRP---FSPSMFEAVLKNFTPDVPNSISGRPRQEDAQEFLSFIMDQM 318
K I + P SPS F+ ++ + P Q+DAQEFL F++D +
Sbjct: 88 ----AKLIQTIWTSSPNDVVSPSEFKTQIQRYAPRFVGY-----NQQDAQEFLRFLLDGL 138
Query: 319 HDELLKLQGESTSINGANTALVSLAEEDEWETVGPKNKSAVTRTQSFLPSALSDIFGGQL 378
H+E+ ++ S N + +DE K + + S + D+F GQL
Sbjct: 139 HNEVNRVTLRPKS----NPENLDHLPDDE------KGRQMWRKYLEREDSRIGDLFVGQL 188
Query: 379 KSVVKAQGNKASATV-QPFLLLHLDI----YSEAVHTIEDALRLFSAPENLEGYRTSSTG 433
KS + +TV PF L L I Y E T+ D +RLF+ + L+G +
Sbjct: 189 KSSLTCTDCGYCSTVFDPFWDLSLPIAKRGYPEV--TLMDCMRLFTKEDVLDGDAAPTCC 246
Query: 434 NAGVVTAK-KSVKIQTLSKILILHLMRFSYGSQGSTKLHKSVRFPLQLVLGRDLLVTPSA 492
K IQ KIL+LHL RFS ++KL V FPL+ + R+ + +
Sbjct: 247 RCRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRTSKLTTFVNFPLRDLDLRE-FASENT 305
Query: 493 EGRKYELVATVTHHGRDPSKGHYTADARY-FNDQWLHFDDASVTAIGTSKVLHDQAYVLF 551
Y L A H G GHYTA R +W F+D+SVT + +S+V AY+LF
Sbjct: 306 NHAVYNLYAVSNHSG-TTMGGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLF 364
Query: 552 YK 553
Y+
Sbjct: 365 YE 366
>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 = 112 bits (280), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 123/383 (32%), Positives = 170/383 (44%), Gaps = 57/383 (14%)
Query: 199 LLPRG------LINSGNLCFLNATLQALMSCSPF--VQLLQELRTRDIPKAGYPT-LT-A 248
L+PRG L N GN CFLNA LQ L S P L ++ R +++P G LT A
Sbjct: 14 LVPRGSSGHVGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFR-QEVPGGGRAQELTEA 72
Query: 249 FVGFVSDFDTPSGGSSKKKNISVLDIGRPFSPSMFEAVLKNFTPDVPNSISGRPRQEDAQ 308
F + P D +P+ F AV + + P S SG Q+DAQ
Sbjct: 73 FADVIGALWHP-------------DSCEAVNPTRFRAVFQKYVP----SFSGYS-QQDAQ 114
Query: 309 EFLSFIMDQMHDELLKLQGESTSINGANTALVS-------LAEEDEWETVGPKN---KSA 358
EFL +M+++H E+ + +G AN + S L EE E N K
Sbjct: 115 EFLKLLMERLHLEINR-RGRRAPPILANGPVPSPPRRGGALLEEPELSDDDRANLMWKRY 173
Query: 359 VTRTQSFLPSALSDIFGGQLKSVVKAQG-NKASATVQPFLLLHLDI----YSEAVHTIED 413
+ R S + D+F GQLKS +K Q S T + F L L I ++ ++ D
Sbjct: 174 LERED----SKIVDLFVGQLKSCLKCQACGYRSTTFEVFCDLSLPIPKKGFAGGKVSLRD 229
Query: 414 ALRLFSAPENLEGYRTSSTGNAGVVT-AKKSVKIQTLSKILILHLMRFSYGSQGSTKLHK 472
LF+ E LE T + K + +Q +IL+LHL RFS S+GS K
Sbjct: 230 CFNLFTKEEELESENAPVCDRCRQKTRSTKKLTVQRFPRILVLHLNRFS-ASRGSIKKSS 288
Query: 473 -SVRFPLQ-LVLGRDLLVTPSAEGRKYELVATVTHHGRDPSKGHYTADARYFNDQWLHFD 530
V FPLQ L LG + A Y+L A H G GHYTA R W ++
Sbjct: 289 VGVDFPLQRLSLGD--FASDKAGSPVYQLYALCNHSG-SVHYGHYTALCR-CQTGWHVYN 344
Query: 531 DASVTAIGTSKVLHDQAYVLFYK 553
D+ V+ + ++V + YVLFY+
Sbjct: 345 DSRVSPVSENQVASSEGYVLFYQ 367
>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 = 112 bits (280), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 120/373 (32%), Positives = 166/373 (44%), Gaps = 51/373 (13%)
Query: 203 GLINSGNLCFLNATLQALMSCSPF--VQLLQELRTRDIPKAGYPT-LT-AFVGFVSDFDT 258
GL N GN CFLNA LQ L S P L ++ R +++P G LT AF +
Sbjct: 5 GLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFR-QEVPGGGRAQELTEAFADVIGALWH 63
Query: 259 PSGGSSKKKNISVLDIGRPFSPSMFEAVLKNFTPDVPNSISGRPRQEDAQEFLSFIMDQM 318
P D +P+ F AV + + P S SG Q+DAQEFL +M+++
Sbjct: 64 P-------------DSCEAVNPTRFRAVFQKYVP----SFSGYS-QQDAQEFLKLLMERL 105
Query: 319 HDELLKLQGESTSINGANTALVS-------LAEEDEWETVGPKN---KSAVTRTQSFLPS 368
H E+ + +G AN + S L EE E N K + R S
Sbjct: 106 HLEINR-RGRRAPPILANGPVPSPPRRGGALLEEPELSDDDRANLMWKRYLERED----S 160
Query: 369 ALSDIFGGQLKSVVKAQG-NKASATVQPFLLLHLDI----YSEAVHTIEDALRLFSAPEN 423
+ D+F GQLKS +K Q S T + F L L I ++ ++ D LF+ E
Sbjct: 161 KIVDLFVGQLKSCLKCQACGYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEE 220
Query: 424 LEGYRTSSTGNAGVVT-AKKSVKIQTLSKILILHLMRFSYGSQGSTKLHK-SVRFPLQ-L 480
LE T + K + +Q +IL+LHL RFS S+GS K V FPLQ L
Sbjct: 221 LESENAPVCDRCRQKTRSTKKLTVQRFPRILVLHLNRFS-ASRGSIKKSSVGVDFPLQRL 279
Query: 481 VLGRDLLVTPSAEGRKYELVATVTHHGRDPSKGHYTADARYFNDQWLHFDDASVTAIGTS 540
LG + A Y+L A H G GHYTA R W ++D+ V+ + +
Sbjct: 280 SLGD--FASDKAGSPVYQLYALCNHSG-SVHYGHYTALCR-CQTGWHVYNDSRVSPVSEN 335
Query: 541 KVLHDQAYVLFYK 553
+V + YVLFY+
Sbjct: 336 QVASSEGYVLFYQ 348
>pdb|3N3K|A Chain A, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 396
Score = 112 bits (280), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 105/357 (29%), Positives = 156/357 (43%), Gaps = 35/357 (9%)
Query: 203 GLINSGNLCFLNATLQALMSCSPFVQLL-QELRTRDIPKAGYPTLTAFVGFVSDFDTPSG 261
GL N GN C++N+ LQ L + + DI ++ +G + G
Sbjct: 64 GLRNLGNTCYMNSILQCLCNAPHLADYFNRNCYQDDINRSN------LLGHKGEVAEEFG 117
Query: 262 GSSKKKNISVLDIG--RPFSPSMFEAVLKNFTPDVPNSISGRPRQEDAQEFLSFIMDQMH 319
K L G R SP F+ + + + +G Q+D+QE L F+MD +H
Sbjct: 118 IIMK-----ALWTGQYRYISPKDFKITIGK----INDQFAGYS-QQDSQELLLFLMDGLH 167
Query: 320 DELLKLQGESTSINGANTALVSL-AEEDEWETVGPKNKSAVTRTQSFLPSALSDIFGGQL 378
++L K N L A E W+ N+S + +F GQ
Sbjct: 168 EDLNKADNRKRYKEENNDHLDDFKAAEHAWQKHKQLNESIIVA-----------LFQGQF 216
Query: 379 KSVVKA-QGNKASATVQPFLLLHLDIYSEAVHTIEDALRLFSAPENL-EGYRTSSTGNAG 436
KS V+ +K S T + F+ L L + S + T++D LRLFS E L + R +
Sbjct: 217 KSTVQCLTCHKKSRTFEAFMYLSLPLASTSKCTLQDCLRLFSKEEKLTDNNRFYCSHCRA 276
Query: 437 VVTAKKSVKIQTLSKILILHLMRFSYGSQGSTKLHKSVRFPLQLVLGRDLLVTPSAEGRK 496
+ K ++I L +L++HL RFSY + KL SV FPL+ + ++ P +K
Sbjct: 277 RRDSLKKIEIWKLPPVLLVHLKRFSYDGRWKQKLQTSVDFPLENLDLSQYVIGPKNNLKK 336
Query: 497 YELVATVTHHGRDPSKGHYTADARYFNDQ-WLHFDDASVTAIGTSKVLHDQAYVLFY 552
Y L + H+G GHYTA + Q W FDD V+ I S V AY+LFY
Sbjct: 337 YNLFSVSNHYG-GLDGGHYTAYCKNAARQRWFKFDDHEVSDISVSSVKSSAAYILFY 392
>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 = 112 bits (279), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 120/373 (32%), Positives = 166/373 (44%), Gaps = 51/373 (13%)
Query: 203 GLINSGNLCFLNATLQALMSCSPF--VQLLQELRTRDIPKAGYPT-LT-AFVGFVSDFDT 258
GL N GN CFLNA LQ L S P L ++ R +++P G LT AF +
Sbjct: 18 GLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFR-QEVPGGGRAQELTEAFADVIGALWH 76
Query: 259 PSGGSSKKKNISVLDIGRPFSPSMFEAVLKNFTPDVPNSISGRPRQEDAQEFLSFIMDQM 318
P D +P+ F AV + + P S SG Q+DAQEFL +M+++
Sbjct: 77 P-------------DSCEAVNPTRFRAVFQKYVP----SFSGYS-QQDAQEFLKLLMERL 118
Query: 319 HDELLKLQGESTSINGANTALVS-------LAEEDEWETVGPKN---KSAVTRTQSFLPS 368
H E+ + +G AN + S L EE E N K + R S
Sbjct: 119 HLEINR-RGRRAPPILANGPVPSPPRRGGALLEEPELSDDDRANLMWKRYLERED----S 173
Query: 369 ALSDIFGGQLKSVVKAQG-NKASATVQPFLLLHLDI----YSEAVHTIEDALRLFSAPEN 423
+ D+F GQLKS +K Q S T + F L L I ++ ++ D LF+ E
Sbjct: 174 KIVDLFVGQLKSCLKCQACGYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEE 233
Query: 424 LEGYRTSSTGNAGVVT-AKKSVKIQTLSKILILHLMRFSYGSQGSTKLHK-SVRFPLQ-L 480
LE T + K + +Q +IL+LHL RFS S+GS K V FPLQ L
Sbjct: 234 LESENAPVCDRCRQKTRSTKKLTVQRFPRILVLHLNRFS-ASRGSIKKSSVGVDFPLQRL 292
Query: 481 VLGRDLLVTPSAEGRKYELVATVTHHGRDPSKGHYTADARYFNDQWLHFDDASVTAIGTS 540
LG + A Y+L A H G GHYTA R W ++D+ V+ + +
Sbjct: 293 SLGD--FASDKAGSPVYQLYALCNHSG-SVHYGHYTALCR-CQTGWHVYNDSRVSPVSEN 348
Query: 541 KVLHDQAYVLFYK 553
+V + YVLFY+
Sbjct: 349 QVASSEGYVLFYQ 361
>pdb|3NHE|A Chain A, High Resolution Structure (1.26a) Of Usp2a In Complex With
Ubiquitin
Length = 348
Score = 108 bits (269), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 110/362 (30%), Positives = 159/362 (43%), Gaps = 43/362 (11%)
Query: 203 GLINSGNLCFLNATLQALMSCSPFVQ-LLQELRTRDIPKAGYPTLTAFVGFVSDFDTPSG 261
GL N GN F+N+ LQ L + LQ L RD+ A V +F
Sbjct: 11 GLRNLGNTXFMNSILQCLSNTRELRDYCLQRLYMRDLHHGS----NAHTALVEEF----- 61
Query: 262 GSSKKKNISVLDIGRP---FSPSMFEAVLKNFTPDVPNSISGRPRQEDAQEFLSFIMDQM 318
K I + P SPS F+ ++ + P Q+DAQEFL F++D +
Sbjct: 62 ----AKLIQTIWTSSPNDVVSPSEFKTQIQRYAPRFVGY-----NQQDAQEFLRFLLDGL 112
Query: 319 HDELLKLQGESTSINGANTALVSLAEEDEWETVGPKNKSAVTRTQSFLPSALSDIFGGQL 378
H+E+ ++ S N + +DE K + + S + D+F GQL
Sbjct: 113 HNEVNRVTLRPKS----NPENLDHLPDDE------KGRQMWRKYLEREDSRIGDLFVGQL 162
Query: 379 KSVVKAQGNKASATV-QPFLLLHLDI----YSEAVHTIEDALRLFSAPENLEG-YRTSST 432
KS + +TV PF L L I Y E T+ D +RLF+ + L+G + +
Sbjct: 163 KSSLTCTDCGYCSTVFDPFWDLSLPIAKRGYPEV--TLMDCMRLFTKEDVLDGDEKPTCC 220
Query: 433 GNAGVVTAKKSVKIQTLSKILILHLMRFSYGSQGSTKLHKSVRFPLQLVLGRDLLVTPSA 492
G K IQ KIL+LHL RFS ++KL V FPL+ + R+ + +
Sbjct: 221 RCRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRTSKLTTFVNFPLRDLDLRE-FASENT 279
Query: 493 EGRKYELVATVTHHGRDPSKGHYTADARY-FNDQWLHFDDASVTAIGTSKVLHDQAYVLF 551
Y L A H G GHYTA R +W F+D+SVT + +S+V AY+LF
Sbjct: 280 NHAVYNLYAVSNHSG-TTMGGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLF 338
Query: 552 YK 553
Y+
Sbjct: 339 YE 340
>pdb|2GFO|A Chain A, Structure Of The Catalytic Domain Of Human Ubiquitin
Carboxyl-terminal Hydrolase 8
Length = 396
Score = 107 bits (267), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 104/357 (29%), Positives = 153/357 (42%), Gaps = 35/357 (9%)
Query: 203 GLINSGNLCFLNATLQALMSCSPFVQLL-QELRTRDIPKAGYPTLTAFVGFVSDFDTPSG 261
GL N GN C+ N+ LQ L + + DI ++ +G + G
Sbjct: 64 GLRNLGNTCYXNSILQCLCNAPHLADYFNRNCYQDDINRSN------LLGHKGEVAEEFG 117
Query: 262 GSSKKKNISVLDIG--RPFSPSMFEAVLKNFTPDVPNSISGRPRQEDAQEFLSFIMDQMH 319
K L G R SP F+ + + + +G Q+D+QE L F+ D +H
Sbjct: 118 IIXK-----ALWTGQYRYISPKDFKITIGK----INDQFAGYS-QQDSQELLLFLXDGLH 167
Query: 320 DELLKLQGESTSINGANTALVSL-AEEDEWETVGPKNKSAVTRTQSFLPSALSDIFGGQL 378
++L K N L A E W+ N+S + +F GQ
Sbjct: 168 EDLNKADNRKRYKEENNDHLDDFKAAEHAWQKHKQLNESIIVA-----------LFQGQF 216
Query: 379 KSVVKA-QGNKASATVQPFLLLHLDIYSEAVHTIEDALRLFSAPENL-EGYRTSSTGNAG 436
KS V+ +K S T + F L L + S + T++D LRLFS E L + R +
Sbjct: 217 KSTVQCLTCHKKSRTFEAFXYLSLPLASTSKCTLQDCLRLFSKEEKLTDNNRFYCSHCRA 276
Query: 437 VVTAKKSVKIQTLSKILILHLMRFSYGSQGSTKLHKSVRFPLQLVLGRDLLVTPSAEGRK 496
+ K ++I L +L++HL RFSY + KL SV FPL+ + ++ P +K
Sbjct: 277 RRDSLKKIEIWKLPPVLLVHLKRFSYDGRWKQKLQTSVDFPLENLDLSQYVIGPKNNLKK 336
Query: 497 YELVATVTHHGRDPSKGHYTADARYFNDQ-WLHFDDASVTAIGTSKVLHDQAYVLFY 552
Y L + H+G GHYTA + Q W FDD V+ I S V AY+LFY
Sbjct: 337 YNLFSVSNHYG-GLDGGHYTAYCKNAARQRWFKFDDHEVSDISVSSVKSSAAYILFY 392
>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 = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 96/372 (25%), Positives = 154/372 (41%), Gaps = 66/372 (17%)
Query: 203 GLINSGNLCFLNATLQALMSCSPFVQ--LLQ----ELRTRDIPKAGYPTLTAFV----GF 252
GLIN GN CF+++ LQ L+ F++ + Q + R K L V G
Sbjct: 143 GLINMGNTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGA 202
Query: 253 VSDFDTPSGGSSKKKNISVLDIGRPFSPSMFEAVLKNFTPDVPNSISGRPRQEDAQEFLS 312
++ S +S + + L + +++G Q+DA EF
Sbjct: 203 LNTKQASSSSTSTNRQTGFI-------------YLLTCAWKINQNLAGYS-QQDAHEFWQ 248
Query: 313 FIMDQMHDELLKLQGESTSINGANTALVSLAEEDEWETVGPKNKSAVTRTQSFLPSALSD 372
FI++Q+H +S ++ N VS A + E + +
Sbjct: 249 FIINQIH--------QSYVLDLPNAKEVSRANNKQCECI------------------VHT 282
Query: 373 IFGGQLKSVVKAQG--NKASATVQPFLLLHLDIYSEAVHTIEDALRLFSAPENLEGYRTS 430
+F G L+S + G N + T+ PFL L LDI + + + L F E L+ +
Sbjct: 283 VFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIKDKK--KLYECLDSFHKKEQLKDFNYH 340
Query: 431 STGNAGVVTAKKSVKIQTLSKILILHLMRFSYGSQGST-KLHKSVRFPLQLVLGRDLLVT 489
A K + I L +L+L L RF + GS KL + FP L + ++ T
Sbjct: 341 CGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRKLDDFIEFPTYLNM-KNYCST 399
Query: 490 PSAEGRK---------YELVATVTHHGRDPSKGHYTADARYFNDQWLHFDDASVTAIGTS 540
+ YEL+ V+H G ++GHY A + QW F+D+ V++I
Sbjct: 400 KEKDKHSENGKVPDIIYELIGIVSHKGT-VNEGHYIAFCKISGGQWFKFNDSMVSSISQE 458
Query: 541 KVLHDQAYVLFY 552
+VL +QAY+LFY
Sbjct: 459 EVLKEQAYLLFY 470
>pdb|3M99|A Chain A, Structure Of The Ubp8-Sgf11-Sgf73-Sus1 Saga Dub Module
Length = 471
Score = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 95/372 (25%), Positives = 154/372 (41%), Gaps = 66/372 (17%)
Query: 203 GLINSGNLCFLNATLQALMSCSPFVQ--LLQ----ELRTRDIPKAGYPTLTAFV----GF 252
GLIN G+ CF+++ LQ L+ F++ + Q + R K L V G
Sbjct: 138 GLINMGSTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGA 197
Query: 253 VSDFDTPSGGSSKKKNISVLDIGRPFSPSMFEAVLKNFTPDVPNSISGRPRQEDAQEFLS 312
++ S +S + + L + +++G Q+DA EF
Sbjct: 198 LNTKQASSSSTSTNRQTGFI-------------YLLTCAWKINQNLAGYS-QQDAHEFWQ 243
Query: 313 FIMDQMHDELLKLQGESTSINGANTALVSLAEEDEWETVGPKNKSAVTRTQSFLPSALSD 372
FI++Q+H +S ++ N VS A + E + +
Sbjct: 244 FIINQIH--------QSYVLDLPNAKEVSRANNKQCECI------------------VHT 277
Query: 373 IFGGQLKSVVKAQG--NKASATVQPFLLLHLDIYSEAVHTIEDALRLFSAPENLEGYRTS 430
+F G L+S + G N + T+ PFL L LDI + + + L F E L+ +
Sbjct: 278 VFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIKDKK--KLYECLDSFHKKEQLKDFNYH 335
Query: 431 STGNAGVVTAKKSVKIQTLSKILILHLMRFSYGSQGST-KLHKSVRFPLQLVLGRDLLVT 489
A K + I L +L+L L RF + GS KL + FP L + ++ T
Sbjct: 336 CGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRKLDDFIEFPTYLNM-KNYCST 394
Query: 490 PSAEGRK---------YELVATVTHHGRDPSKGHYTADARYFNDQWLHFDDASVTAIGTS 540
+ YEL+ V+H G ++GHY A + QW F+D+ V++I
Sbjct: 395 KEKDKHSENGKVPDIIYELIGIVSHKGT-VNEGHYIAFCKISGGQWFKFNDSMVSSISQE 453
Query: 541 KVLHDQAYVLFY 552
+VL +QAY+LFY
Sbjct: 454 EVLKEQAYLLFY 465
>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 = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 95/372 (25%), Positives = 154/372 (41%), Gaps = 66/372 (17%)
Query: 203 GLINSGNLCFLNATLQALMSCSPFVQ--LLQ----ELRTRDIPKAGYPTLTAFV----GF 252
GLIN G+ CF+++ LQ L+ F++ + Q + R K L V G
Sbjct: 143 GLINMGSTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGA 202
Query: 253 VSDFDTPSGGSSKKKNISVLDIGRPFSPSMFEAVLKNFTPDVPNSISGRPRQEDAQEFLS 312
++ S +S + + L + +++G Q+DA EF
Sbjct: 203 LNTKQASSSSTSTNRQTGFI-------------YLLTCAWKINQNLAGYS-QQDAHEFWQ 248
Query: 313 FIMDQMHDELLKLQGESTSINGANTALVSLAEEDEWETVGPKNKSAVTRTQSFLPSALSD 372
FI++Q+H +S ++ N VS A + E + +
Sbjct: 249 FIINQIH--------QSYVLDLPNAKEVSRANNKQCECI------------------VHT 282
Query: 373 IFGGQLKSVVKAQG--NKASATVQPFLLLHLDIYSEAVHTIEDALRLFSAPENLEGYRTS 430
+F G L+S + G N + T+ PFL L LDI + + + L F E L+ +
Sbjct: 283 VFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIKDKK--KLYECLDSFHKKEQLKDFNYH 340
Query: 431 STGNAGVVTAKKSVKIQTLSKILILHLMRFSYGSQGST-KLHKSVRFPLQLVLGRDLLVT 489
A K + I L +L+L L RF + GS KL + FP L + ++ T
Sbjct: 341 CGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRKLDDFIEFPTYLNM-KNYCST 399
Query: 490 PSAEGRK---------YELVATVTHHGRDPSKGHYTADARYFNDQWLHFDDASVTAIGTS 540
+ YEL+ V+H G ++GHY A + QW F+D+ V++I
Sbjct: 400 KEKDKHSENGKVPDIIYELIGIVSHKGT-VNEGHYIAFCKISGGQWFKFNDSMVSSISQE 458
Query: 541 KVLHDQAYVLFY 552
+VL +QAY+LFY
Sbjct: 459 EVLKEQAYLLFY 470
>pdb|2F1Z|A Chain A, Crystal Structure Of Hausp
pdb|2F1Z|B Chain B, Crystal Structure Of Hausp
Length = 522
Score = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 55/189 (29%), Positives = 83/189 (43%), Gaps = 17/189 (8%)
Query: 354 KNKSAVTRTQSFLPSALSDIFGGQLKSVVKAQG-NKASATVQPFLLLHLDIYSEAVHTIE 412
+NK T + +P +F G++ S ++ + + S + + + L I + I
Sbjct: 270 ENKMKGTCVEGTIPK----LFRGKMVSYIQCKEVDYRSDRREDYYDIQLSI--KGKKNIF 323
Query: 413 DALRLFSAPENLEGYRTSSTGNAGVVTAKKSVKIQTLSKILILHLMRFSYGSQ--GSTKL 470
++ + A E L+G G G+ A+K VK TL +L L LMRF Y Q + K+
Sbjct: 324 ESFVDYVAVEQLDGDNKYDAGEHGLQEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKI 383
Query: 471 HKSVRFPLQLVLGRDLLVTPSAEGRKYELVATVTHHGRDPSKGHYTADARYFN----DQW 526
+ FP QL L L T + Y L A + H G D GHY Y N +W
Sbjct: 384 NDRFEFPEQLPLDEFLQKTDPKDPANYILHAVLVHSG-DNHGGHYVV---YLNPKGDGKW 439
Query: 527 LHFDDASVT 535
FDD V+
Sbjct: 440 CKFDDDVVS 448
>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 = 57.8 bits (138), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 44/124 (35%), Positives = 56/124 (45%), Gaps = 10/124 (8%)
Query: 418 FSAPENLEGYRTSSTGNAGVVTAKKSVKIQTLSKILILHLMRFSYGSQ--GSTKLHKSVR 475
+ A E L+G G G+ A+K VK TL +L L LMRF Y Q + K++
Sbjct: 160 YVAVEQLDGDNKYDAGEHGLQEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFE 219
Query: 476 FPLQLVLGRDLLVTPSAEGRKYELVATVTHHGRDPSKGHYTADARYFN----DQWLHFDD 531
FP QL L L T + Y L A + H G D GHY Y N +W FDD
Sbjct: 220 FPEQLPLDEFLQKTDPKDPANYILHAVLVHSG-DNHGGHYVV---YLNPKGDGKWCKFDD 275
Query: 532 ASVT 535
V+
Sbjct: 276 DVVS 279
>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 = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 97/419 (23%), Positives = 149/419 (35%), Gaps = 107/419 (25%)
Query: 200 LPRGLINSGNLCFLNATLQALMSCSPFVQLLQE----LRTR-DIPKAGYPTLTAFVGFVS 254
LP GL N GN C++NAT+Q + S L+ LR ++ A Y T
Sbjct: 13 LPCGLTNLGNTCYMNATVQCIRSVPELKDALKRYAGALRASGEMASAQYIT----AALRD 68
Query: 255 DFDTPSGGSSKKKNISVLDIGRPFSPSMFEAVLKNFTPDVPNSISGRPRQEDAQEFLSFI 314
FD+ SS I +L P E G+ Q+DA E +
Sbjct: 69 LFDSMDKTSSSIPPIILLQFLHMAFPQFAE-----------KGEQGQYLQQDANECWIQM 117
Query: 315 MDQMHDELLKLQGESTSINGANTALVSLAEEDEWETVGPKNKSAVTRTQSFLPSALSDIF 374
M + +L ++ +S + E D + SA T S S + F
Sbjct: 118 MRVLQQKLEAIEDDS------------VKETD--------SSSASAATPSKKKSLIDQFF 157
Query: 375 GGQLKSVVKA-QGNKASATVQPFLLLHLDIY-SEAVHTIEDALRLFSAPENLEGYRTSST 432
G + ++ +K + + T L L + ++ V + L+L E + +
Sbjct: 158 GVEFETTMKCTESEEEEVTKGKENQLQLSCFINQEVKYLFTGLKL-RLQEEITKQSPTLQ 216
Query: 433 GNAGVVTAKKSVKIQTLSKILILHLMRFSYGSQGST--KLHKSVRFPLQLVLGRDLLVTP 490
NA + KS KI L L + ++RF Y + S K+ K V+FPL L + L TP
Sbjct: 217 RNALYI---KSSKISRLPAYLTIQMVRFFYKEKESVNAKVLKDVKFPLMLDMYE--LCTP 271
Query: 491 SAEGRK--------------------------------------------------YELV 500
+ + Y+L
Sbjct: 272 ELQEKMVSFRSKFKDLEDKKVNQQPNTSDKKSSPQKEVKYEPFSFADDIGSNNCGYYDLQ 331
Query: 501 ATVTHHGRDPSKGHYTADARYFNDQWLHFDDASVTAIGTSKVLH-------DQAYVLFY 552
A +TH GR S GHY + + D+W+ FDD V+ + +L AYVL Y
Sbjct: 332 AVLTHQGRSSSSGHYVSWVKRKQDEWIKFDDDKVSIVTPEDILRLSGGGDWHIAYVLLY 390
>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 = 55.1 bits (131), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 43/124 (34%), Positives = 55/124 (44%), Gaps = 10/124 (8%)
Query: 418 FSAPENLEGYRTSSTGNAGVVTAKKSVKIQTLSKILILHLMRFSYGSQ--GSTKLHKSVR 475
+ A E L+G G G+ A+K VK TL +L L L RF Y Q + K++
Sbjct: 160 YVAVEQLDGDNKYDAGEHGLQEAEKGVKFLTLPPVLHLQLXRFXYDPQTDQNIKINDRFE 219
Query: 476 FPLQLVLGRDLLVTPSAEGRKYELVATVTHHGRDPSKGHYTADARYFN----DQWLHFDD 531
FP QL L L T + Y L A + H G D GHY Y N +W FDD
Sbjct: 220 FPEQLPLDEFLQKTDPKDPANYILHAVLVHSG-DNHGGHYVV---YLNPKGDGKWCKFDD 275
Query: 532 ASVT 535
V+
Sbjct: 276 DVVS 279
>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 = 37.7 bits (86), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 9/66 (13%)
Query: 497 YELVATVTHHGRDPSKGHYTADARYFNDQ--WLHFDDASVTAIGTSKV-------LHDQA 547
Y L+ +TH G + GHY A R D+ W F+D V+ + K+ D A
Sbjct: 346 YNLIGVITHQGANSESGHYQAFIRDELDENKWYKFNDDKVSVVEKEKIESLAGGGESDSA 405
Query: 548 YVLFYK 553
+L YK
Sbjct: 406 LILXYK 411
Score = 36.2 bits (82), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 15/22 (68%), Positives = 16/22 (72%)
Query: 200 LPRGLINSGNLCFLNATLQALM 221
LP G N GN C+LNATLQAL
Sbjct: 23 LPVGFKNXGNTCYLNATLQALY 44
>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 = 0.019, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 496 KYELVATVTHHGRDPSKGHYTADARYFNDQWLHFDDASVTAIGTSKVLHDQAYVLFYKQV 555
KY+L A ++H G GHY + +W+ ++D V A + K D Y+ FY++V
Sbjct: 796 KYQLFAFISHMGTSTMCGHYVCHIKK-EGRWVIYNDQKVCA--SEKPPKDLGYIYFYQRV 852
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 57/289 (19%), Positives = 114/289 (39%), Gaps = 29/289 (10%)
Query: 203 GLINSGNLCFLNATLQALMSCSPF----VQLLQEL--RTRDIPKAGYPTLTAFVG---FV 253
G+ N GN C+LN+ +Q L S F V L+++ P + T A +G
Sbjct: 346 GIRNLGNSCYLNSVVQVLFSIPDFQRKYVDKLEKIFQNAPTDPTQDFSTQVAKLGHGLLS 405
Query: 254 SDFDTPSGGSSKKKNI-SVLDIGRPFSPSMFEAVLKNFTPDVPNSISGRPRQEDAQEFLS 312
++ P S + + ++ +P MF+A++ P+ + RQ+DAQEF
Sbjct: 406 GEYSKPVPESGDGERVPEQKEVQDGIAPRMFKALIGKGHPEFSTN-----RQQDAQEFFL 460
Query: 313 FIMDQMHDELLKLQGESTSINGANTALVSLAEEDEWETVGPKNKSAVTRTQSFLPSALSD 372
+++ ++ S N L EE + + + + R + +
Sbjct: 461 HLINM-------VERNCRSSENPNEVFRFLVEE-KIKCLATEKVKYTQRVDYIMQLPVPM 512
Query: 373 IFGGQLKSVVKAQGNKASATVQPFLLLHLDIYSEAVHTIEDALRLFSAPENLEGYRTSST 432
+ +++ + K A + L L A L + APE ++ + +++
Sbjct: 513 DAALNKEELLEYEEKKRQAEEEKMALPEL---VRAQVPFSSCLEAYGAPEQVDDFWSTAL 569
Query: 433 GNAGVVTAKKSVKIQTLSKILILHLMRFSYGSQG-STKLHKSVRFPLQL 480
V A K+ + + L++ + +F++G KL S+ P +L
Sbjct: 570 QAKSV--AVKTTRFASFPDYLVIQIKKFTFGLDWVPKKLDVSIEMPEEL 616
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
0.314 0.131 0.373
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,543,310
Number of Sequences: 62578
Number of extensions: 689763
Number of successful extensions: 1501
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1428
Number of HSP's gapped (non-prelim): 35
length of query: 555
length of database: 14,973,337
effective HSP length: 104
effective length of query: 451
effective length of database: 8,465,225
effective search space: 3817816475
effective search space used: 3817816475
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)