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= 036257
(418 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 = 156 bits (394), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 108/343 (31%), Positives = 172/343 (50%), Gaps = 34/343 (9%)
Query: 93 RRIG-AGLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSCHI--AGFCALCAIQKHV 149
RR G +GL N+GNTCF++S+LQCL + + S H ++C + C CA+ K V
Sbjct: 137 RRDGLSGLINMGNTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIV 196
Query: 150 ------------SRALQATGRILAPKDLVSNLRCISRNFRNSRQEDAHEYMVNLLESMHK 197
S + +T R L++ I++N Q+DAHE+ ++ +H+
Sbjct: 197 HELYGALNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQ 256
Query: 198 CC---LPSGVPSESANAYE-KSLVHKIFGGRLRSQVKCTQCSYCS-NKFDPFLDLSLEIA 252
LP+ AN + + +VH +F G L S + C C S DPFLDLSL+I
Sbjct: 257 SYVLDLPNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIK 316
Query: 253 KADSVLKALNNFTAAELLDGGEKEYHCQRCKQKVRALKQLTVYKAPYVLTIHLKRFR--A 310
+ + L++F E L + YHC C A+KQL ++K P VL + LKRF
Sbjct: 317 DKKKLYECLDSFHKKEQLK--DFNYHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLL 374
Query: 311 HDPGQKNDKKVQFGSTLDMKPFVSGSYEG---------DLKYTLYGVLVHHGWSTHSGHY 361
+ +K D ++F + L+MK + S + D+ Y L G++ H G + + GHY
Sbjct: 375 NGSNRKLDDFIEFPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKG-TVNEGHY 433
Query: 362 YCFVRTSSGMWYSLDDNRVVQVNERSVLEQKAYMLFYVRDRKN 404
F + S G W+ +D+ V +++ VL+++AY+LFY + N
Sbjct: 434 IAFCKISGGQWFKFNDSMVSSISQEEVLKEQAYLLFYTIRQVN 476
>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 = 154 bits (389), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 107/343 (31%), Positives = 172/343 (50%), Gaps = 34/343 (9%)
Query: 93 RRIG-AGLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSCHI--AGFCALCAIQKHV 149
RR G +GL N+G+TCF++S+LQCL + + S H ++C + C CA+ K V
Sbjct: 137 RRDGLSGLINMGSTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIV 196
Query: 150 ------------SRALQATGRILAPKDLVSNLRCISRNFRNSRQEDAHEYMVNLLESMHK 197
S + +T R L++ I++N Q+DAHE+ ++ +H+
Sbjct: 197 HELYGALNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQ 256
Query: 198 CC---LPSGVPSESANAYE-KSLVHKIFGGRLRSQVKCTQCSYCS-NKFDPFLDLSLEIA 252
LP+ AN + + +VH +F G L S + C C S DPFLDLSL+I
Sbjct: 257 SYVLDLPNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIK 316
Query: 253 KADSVLKALNNFTAAELLDGGEKEYHCQRCKQKVRALKQLTVYKAPYVLTIHLKRFR--A 310
+ + L++F E L + YHC C A+KQL ++K P VL + LKRF
Sbjct: 317 DKKKLYECLDSFHKKEQLK--DFNYHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLL 374
Query: 311 HDPGQKNDKKVQFGSTLDMKPFVSGSYEG---------DLKYTLYGVLVHHGWSTHSGHY 361
+ +K D ++F + L+MK + S + D+ Y L G++ H G + + GHY
Sbjct: 375 NGSNRKLDDFIEFPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKG-TVNEGHY 433
Query: 362 YCFVRTSSGMWYSLDDNRVVQVNERSVLEQKAYMLFYVRDRKN 404
F + S G W+ +D+ V +++ VL+++AY+LFY + N
Sbjct: 434 IAFCKISGGQWFKFNDSMVSSISQEEVLKEQAYLLFYTIRQVN 476
>pdb|3M99|A Chain A, Structure Of The Ubp8-Sgf11-Sgf73-Sus1 Saga Dub Module
Length = 471
Score = 154 bits (389), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 107/343 (31%), Positives = 172/343 (50%), Gaps = 34/343 (9%)
Query: 93 RRIG-AGLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSCHI--AGFCALCAIQKHV 149
RR G +GL N+G+TCF++S+LQCL + + S H ++C + C CA+ K V
Sbjct: 132 RRDGLSGLINMGSTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIV 191
Query: 150 ------------SRALQATGRILAPKDLVSNLRCISRNFRNSRQEDAHEYMVNLLESMHK 197
S + +T R L++ I++N Q+DAHE+ ++ +H+
Sbjct: 192 HELYGALNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQ 251
Query: 198 CC---LPSGVPSESANAYE-KSLVHKIFGGRLRSQVKCTQCSYCS-NKFDPFLDLSLEIA 252
LP+ AN + + +VH +F G L S + C C S DPFLDLSL+I
Sbjct: 252 SYVLDLPNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIK 311
Query: 253 KADSVLKALNNFTAAELLDGGEKEYHCQRCKQKVRALKQLTVYKAPYVLTIHLKRFR--A 310
+ + L++F E L + YHC C A+KQL ++K P VL + LKRF
Sbjct: 312 DKKKLYECLDSFHKKEQLK--DFNYHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLL 369
Query: 311 HDPGQKNDKKVQFGSTLDMKPFVSGSYEG---------DLKYTLYGVLVHHGWSTHSGHY 361
+ +K D ++F + L+MK + S + D+ Y L G++ H G + + GHY
Sbjct: 370 NGSNRKLDDFIEFPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKG-TVNEGHY 428
Query: 362 YCFVRTSSGMWYSLDDNRVVQVNERSVLEQKAYMLFYVRDRKN 404
F + S G W+ +D+ V +++ VL+++AY+LFY + N
Sbjct: 429 IAFCKISGGQWFKFNDSMVSSISQEEVLKEQAYLLFYTIRQVN 471
>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 = 140 bits (353), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 108/350 (30%), Positives = 170/350 (48%), Gaps = 36/350 (10%)
Query: 81 GLDPELSFGTTFRRIGAGLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSCHIAGFC 140
GL P S + + AGL NLGNTCF+NS+LQCL+ T L Y + H G
Sbjct: 13 GLVPRGSMNSKSAQGLAGLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLH-HGSN 71
Query: 141 ALCAIQKHVSRALQ-----ATGRILAPKDLVSNLRCISRNFRNSRQEDAHEYMVNLLESM 195
A A+ + ++ +Q + +++P + + ++ + F Q+DA E++ LL+ +
Sbjct: 72 AHTALVEEFAKLIQTIWTSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGL 131
Query: 196 HK-----CCLPSGVPSESAN---------------AYEKSLVHKIFGGRLRSQVKCTQCS 235
H P P + E S + +F G+L+S + CT C
Sbjct: 132 HNEVNRVTLRPKSNPENLDHLPDDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCG 191
Query: 236 YCSNKFDPFLDLSLEIAKAD----SVLKALNNFTAAELLDGGEKEYHCQRCKQKVRALKQ 291
YCS FDPF DLSL IAK +++ + FT ++LDG EK RC+ + R +K+
Sbjct: 192 YCSTVFDPFWDLSLPIAKRGYPEVTLMDCMRLFTKEDVLDGDEKPTC-CRCRGRKRCIKK 250
Query: 292 LTVYKAPYVLTIHLKRF-RAHDPGQKNDKKVQFG-STLDMKPFVSGSYEGDLKYTLYGVL 349
++ + P +L +HLKRF + K V F LD++ F S + + Y LY V
Sbjct: 251 FSIQRFPKILVLHLKRFSESRIRTSKLTTFVNFPLRDLDLREFASENTNHAV-YNLYAVS 309
Query: 350 VHHGWSTHSGHYYCFVRT-SSGMWYSLDDNRVVQVNERSVLEQKAYMLFY 398
H G +T GHY + R+ +G W++ +D+ V ++ V AY+LFY
Sbjct: 310 NHSG-TTMGGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFY 358
>pdb|2HD5|A Chain A, Usp2 In Complex With Ubiquitin
Length = 359
Score = 139 bits (349), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 104/334 (31%), Positives = 164/334 (49%), Gaps = 36/334 (10%)
Query: 97 AGLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSCHIAGFCALCAIQKHVSRALQ-- 154
AGL NLGNTCF+NS+LQCL+ T L Y + H G A A+ + ++ +Q
Sbjct: 10 AGLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLH-HGSNAHTALVEEFAKLIQTI 68
Query: 155 ---ATGRILAPKDLVSNLRCISRNFRNSRQEDAHEYMVNLLESMHK-----CCLPSGVPS 206
+ +++P + + ++ + F Q+DA E++ LL+ +H P P
Sbjct: 69 WTSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPE 128
Query: 207 ESAN---------------AYEKSLVHKIFGGRLRSQVKCTQCSYCSNKFDPFLDLSLEI 251
+ E S + +F G+L+S + CT C YCS FDPF DLSL I
Sbjct: 129 NLDHLPDDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPI 188
Query: 252 AKAD----SVLKALNNFTAAELLDGGEKEYHCQRCKQKVRALKQLTVYKAPYVLTIHLKR 307
AK +++ + FT ++LDG EK RC+ + R +K+ ++ + P +L +HLKR
Sbjct: 189 AKRGYPEVTLMDCMRLFTKEDVLDGDEKPTC-CRCRGRKRCIKKFSIQRFPKILVLHLKR 247
Query: 308 F-RAHDPGQKNDKKVQFG-STLDMKPFVSGSYEGDLKYTLYGVLVHHGWSTHSGHYYCFV 365
F + K V F LD++ F S + + Y LY V H G +T GHY +
Sbjct: 248 FSESRIRTSKLTTFVNFPLRDLDLREFASENTNHAV-YNLYAVSNHSG-TTMGGHYTAYC 305
Query: 366 RT-SSGMWYSLDDNRVVQVNERSVLEQKAYMLFY 398
R+ +G W++ +D+ V ++ V AY+LFY
Sbjct: 306 RSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFY 339
>pdb|3NHE|A Chain A, High Resolution Structure (1.26a) Of Usp2a In Complex With
Ubiquitin
Length = 348
Score = 135 bits (339), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 103/334 (30%), Positives = 163/334 (48%), Gaps = 36/334 (10%)
Query: 97 AGLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSCHIAGFCALCAIQKHVSRALQ-- 154
AGL NLGNT F+NS+LQCL+ T L Y + H G A A+ + ++ +Q
Sbjct: 10 AGLRNLGNTXFMNSILQCLSNTRELRDYCLQRLYMRDLH-HGSNAHTALVEEFAKLIQTI 68
Query: 155 ---ATGRILAPKDLVSNLRCISRNFRNSRQEDAHEYMVNLLESMHK-----CCLPSGVPS 206
+ +++P + + ++ + F Q+DA E++ LL+ +H P P
Sbjct: 69 WTSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPE 128
Query: 207 ESAN---------------AYEKSLVHKIFGGRLRSQVKCTQCSYCSNKFDPFLDLSLEI 251
+ E S + +F G+L+S + CT C YCS FDPF DLSL I
Sbjct: 129 NLDHLPDDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPI 188
Query: 252 AKAD----SVLKALNNFTAAELLDGGEKEYHCQRCKQKVRALKQLTVYKAPYVLTIHLKR 307
AK +++ + FT ++LDG EK RC+ + R +K+ ++ + P +L +HLKR
Sbjct: 189 AKRGYPEVTLMDCMRLFTKEDVLDGDEKPTC-CRCRGRKRCIKKFSIQRFPKILVLHLKR 247
Query: 308 F-RAHDPGQKNDKKVQFG-STLDMKPFVSGSYEGDLKYTLYGVLVHHGWSTHSGHYYCFV 365
F + K V F LD++ F S + + Y LY V H G +T GHY +
Sbjct: 248 FSESRIRTSKLTTFVNFPLRDLDLREFASENTNHAV-YNLYAVSNHSG-TTMGGHYTAYC 305
Query: 366 RT-SSGMWYSLDDNRVVQVNERSVLEQKAYMLFY 398
R+ +G W++ +D+ V ++ V AY+LFY
Sbjct: 306 RSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFY 339
>pdb|2IBI|A Chain A, Covalent Ubiquitin-Usp2 Complex
Length = 374
Score = 135 bits (339), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 103/334 (30%), Positives = 164/334 (49%), Gaps = 36/334 (10%)
Query: 97 AGLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSCHIAGFCALCAIQKHVSRALQ-- 154
AGL NLGNTCF+NS+LQCL+ T L Y + H G A A+ + ++ +Q
Sbjct: 36 AGLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLH-HGSNAHTALVEEFAKLIQTI 94
Query: 155 ---ATGRILAPKDLVSNLRCISRNFRNSRQEDAHEYMVNLLESMHK-----CCLPSGVPS 206
+ +++P + + ++ + F Q+DA E++ LL+ +H P P
Sbjct: 95 WTSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPE 154
Query: 207 ESAN---------------AYEKSLVHKIFGGRLRSQVKCTQCSYCSNKFDPFLDLSLEI 251
+ E S + +F G+L+S + CT C YCS FDPF DLSL I
Sbjct: 155 NLDHLPDDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPI 214
Query: 252 AKAD----SVLKALNNFTAAELLDGGEKEYHCQRCKQKVRALKQLTVYKAPYVLTIHLKR 307
AK +++ + FT ++LD G+ C RC+ + R +K+ ++ + P +L +HLKR
Sbjct: 215 AKRGYPEVTLMDCMRLFTKEDVLD-GDAAPTCCRCRGRKRCIKKFSIQRFPKILVLHLKR 273
Query: 308 F-RAHDPGQKNDKKVQFG-STLDMKPFVSGSYEGDLKYTLYGVLVHHGWSTHSGHYYCFV 365
F + K V F LD++ F S + + Y LY V H G +T GHY +
Sbjct: 274 FSESRIRTSKLTTFVNFPLRDLDLREFASENTNHAV-YNLYAVSNHSG-TTMGGHYTAYC 331
Query: 366 RT-SSGMWYSLDDNRVVQVNERSVLEQKAYMLFY 398
R+ +G W++ +D+ V ++ V AY+LFY
Sbjct: 332 RSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFY 365
>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 = 129 bits (323), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 111/350 (31%), Positives = 154/350 (44%), Gaps = 54/350 (15%)
Query: 97 AGLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSCHIAGFC-ALCAIQKHVSRAL-- 153
GL NLGNTCFLN+VLQCL+ T PL + + G L V AL
Sbjct: 23 VGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQELTEAFADVIGALWH 82
Query: 154 QATGRILAPKDLVSNLRCISRNFRNSRQEDAHEYMVNLLESMH----------KCCLPSG 203
+ + P + + +F Q+DA E++ L+E +H L +G
Sbjct: 83 PDSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLLMERLHLEINRRGRRAPPILANG 142
Query: 204 -VPS-----------------ESANAY-------EKSLVHKIFGGRLRSQVKCTQCSYCS 238
VPS + AN E S + +F G+L+S +KC C Y S
Sbjct: 143 PVPSPPRRGGALLEEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQACGYRS 202
Query: 239 NKFDPFLDLSLEIAKAD------SVLKALNNFTAAELLDGGEKEYHCQRCKQKVRALKQL 292
F+ F DLSL I K S+ N FT E L+ E C RC+QK R+ K+L
Sbjct: 203 TTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELES-ENAPVCDRCRQKTRSTKKL 261
Query: 293 TVYKAPYVLTIHLKRFRAHDPGQKNDKKVQFGSTLDMKPFVSGSYEGDLK----YTLYGV 348
TV + P +L +HL RF A + + KK G ++ G + D Y LY +
Sbjct: 262 TVQRFPRILVLHLNRFSA---SRGSIKKSSVGVDFPLQRLSLGDFASDKAGSPVYQLYAL 318
Query: 349 LVHHGWSTHSGHYYCFVRTSSGMWYSLDDNRVVQVNERSVLEQKAYMLFY 398
H G S H GHY R +G W+ +D+RV V+E V + Y+LFY
Sbjct: 319 CNHSG-SVHYGHYTALCRCQTG-WHVYNDSRVSPVSENQVASSEGYVLFY 366
>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 = 128 bits (322), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 110/355 (30%), Positives = 154/355 (43%), Gaps = 64/355 (18%)
Query: 97 AGLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSCHIAGFCALCAIQKHVSRALQAT 156
GL NLGNTCFLN+VLQCL+ T PL + + G Q+
Sbjct: 4 VGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGG-----RAQELTEAFADVI 58
Query: 157 GRILAPKDL----VSNLRCISR----NFRNSRQEDAHEYMVNLLESMH----------KC 198
G + P + R + + +F Q+DA E++ L+E +H
Sbjct: 59 GALWHPDSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLLMERLHLEINRRGRRAPP 118
Query: 199 CLPSG-VPS-----------------ESANAY-------EKSLVHKIFGGRLRSQVKCTQ 233
L +G VPS + AN E S + +F G+L+S +KC
Sbjct: 119 ILANGPVPSPPRRGGALLEEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQA 178
Query: 234 CSYCSNKFDPFLDLSLEIAKAD------SVLKALNNFTAAELLDGGEKEYHCQRCKQKVR 287
C Y S F+ F DLSL I K S+ N FT E L+ E C RC+QK R
Sbjct: 179 CGYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELES-ENAPVCDRCRQKTR 237
Query: 288 ALKQLTVYKAPYVLTIHLKRFRAHDPGQKNDKKVQFGSTLDMKPFVSGSYEGDLK----Y 343
+ K+LTV + P +L +HL RF A + + KK G ++ G + D Y
Sbjct: 238 STKKLTVQRFPRILVLHLNRFSA---SRGSIKKSSVGVDFPLQRLSLGDFASDKAGSPVY 294
Query: 344 TLYGVLVHHGWSTHSGHYYCFVRTSSGMWYSLDDNRVVQVNERSVLEQKAYMLFY 398
LY + H G S H GHY R +G W+ +D+RV V+E V + Y+LFY
Sbjct: 295 QLYALCNHSG-SVHYGHYTALCRCQTG-WHVYNDSRVSPVSENQVASSEGYVLFY 347
>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 = 128 bits (321), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 110/355 (30%), Positives = 154/355 (43%), Gaps = 64/355 (18%)
Query: 97 AGLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSCHIAGFCALCAIQKHVSRALQAT 156
GL NLGNTCFLN+VLQCL+ T PL + + G Q+
Sbjct: 17 VGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGG-----RAQELTEAFADVI 71
Query: 157 GRILAPKDL----VSNLRCISR----NFRNSRQEDAHEYMVNLLESMH----------KC 198
G + P + R + + +F Q+DA E++ L+E +H
Sbjct: 72 GALWHPDSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLLMERLHLEINRRGRRAPP 131
Query: 199 CLPSG-VPS-----------------ESANAY-------EKSLVHKIFGGRLRSQVKCTQ 233
L +G VPS + AN E S + +F G+L+S +KC
Sbjct: 132 ILANGPVPSPPRRGGALLEEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQA 191
Query: 234 CSYCSNKFDPFLDLSLEIAKAD------SVLKALNNFTAAELLDGGEKEYHCQRCKQKVR 287
C Y S F+ F DLSL I K S+ N FT E L+ E C RC+QK R
Sbjct: 192 CGYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELES-ENAPVCDRCRQKTR 250
Query: 288 ALKQLTVYKAPYVLTIHLKRFRAHDPGQKNDKKVQFGSTLDMKPFVSGSYEGDLK----Y 343
+ K+LTV + P +L +HL RF A + + KK G ++ G + D Y
Sbjct: 251 STKKLTVQRFPRILVLHLNRFSA---SRGSIKKSSVGVDFPLQRLSLGDFASDKAGSPVY 307
Query: 344 TLYGVLVHHGWSTHSGHYYCFVRTSSGMWYSLDDNRVVQVNERSVLEQKAYMLFY 398
LY + H G S H GHY R +G W+ +D+RV V+E V + Y+LFY
Sbjct: 308 QLYALCNHSG-SVHYGHYTALCRCQTG-WHVYNDSRVSPVSENQVASSEGYVLFY 360
>pdb|3N3K|A Chain A, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 396
Score = 117 bits (293), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 96/334 (28%), Positives = 156/334 (46%), Gaps = 34/334 (10%)
Query: 97 AGLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSC---HIAGFCALCAIQKHVSRAL 153
GL NLGNTC++NS+LQCL LA Y +Q ++ G A + +
Sbjct: 63 TGLRNLGNTCYMNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEFGIIMKA 122
Query: 154 QATG--RILAPKDLVSNLRCISRNFRNSRQEDAHEYMVNLLESMHKCC------------ 199
TG R ++PKD + I+ F Q+D+ E ++ L++ +H+
Sbjct: 123 LWTGQYRYISPKDFKITIGKINDQFAGYSQQDSQELLLFLMDGLHEDLNKADNRKRYKEE 182
Query: 200 ----LPSGVPSESA----NAYEKSLVHKIFGGRLRSQVKCTQCSYCSNKFDPFLDLSLEI 251
L +E A +S++ +F G+ +S V+C C S F+ F+ LSL +
Sbjct: 183 NNDHLDDFKAAEHAWQKHKQLNESIIVALFQGQFKSTVQCLTCHKKSRTFEAFMYLSLPL 242
Query: 252 AKAD--SVLKALNNFTAAELLDGGEKEYHCQRCKQKVRALKQLTVYKAPYVLTIHLKRFR 309
A ++ L F+ E L + ++C C+ + +LK++ ++K P VL +HLKRF
Sbjct: 243 ASTSKCTLQDCLRLFSKEEKLTDNNR-FYCSHCRARRDSLKKIEIWKLPPVLLVHLKRF- 300
Query: 310 AHDP--GQKNDKKVQFG-STLDMKPFVSGSYEGDLKYTLYGVLVHHGWSTHSGHYYCFVR 366
++D QK V F LD+ +V G KY L+ V H+G GHY + +
Sbjct: 301 SYDGRWKQKLQTSVDFPLENLDLSQYVIGPKNNLKKYNLFSVSNHYG-GLDGGHYTAYCK 359
Query: 367 TSSGM-WYSLDDNRVVQVNERSVLEQKAYMLFYV 399
++ W+ DD+ V ++ SV AY+LFY
Sbjct: 360 NAARQRWFKFDDHEVSDISVSSVKSSAAYILFYT 393
>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 (286), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 95/351 (27%), Positives = 156/351 (44%), Gaps = 51/351 (14%)
Query: 98 GLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSCH------IAGFCALCAIQKHVSR 151
GL NLGNT F+NS LQCL+ T PL Y ++++ + + G A A + + +
Sbjct: 10 GLGNLGNTXFMNSALQCLSNTAPLTDYFLKDEYEAEINRDNPLGMKGEIAE-AYAELIKQ 68
Query: 152 ALQATGRILAPKDLVSNLRCISRNFRNSRQEDAHEYMVNLLESMHKCC------------ 199
+AP+ + + + F +Q+D+ E + LL+ +H+
Sbjct: 69 MWSGRDAHVAPRMFKTQVGRFAPQFSGYQQQDSQELLAFLLDGLHEDLNRVKKKPYLELK 128
Query: 200 ----LPSGVPSESANAYEK----SLVHKIFGGRLRSQVKCTQCSYCSNKFDPFLDLSLEI 251
P V ++ A + S++ F G +S + C +C+ S FDPF L+L +
Sbjct: 129 DANGRPDAVVAKEAWENHRLRNDSVIVDTFHGLFKSTLVCPECAKVSVTFDPFCYLTLPL 188
Query: 252 A-KADSVLKA------------------LNNFTAAELLDGGEKEYHCQRCKQKVRALKQL 292
K D V++ + FT E L G ++C CK+ +A K+
Sbjct: 189 PLKKDRVMEGPMLQPQKKKKTTVALRDCIELFTTMETL-GEHDPWYCPNCKKHQQATKKF 247
Query: 293 TVYKAPYVLTIHLKRFRAHDPGQ-KNDKKVQFG-STLDMKPFVSGSYEGDLKYTLYGVLV 350
++ P +L +HLKRF + + K D V+F L+M FV Y L V
Sbjct: 248 DLWSLPKILVVHLKRFSYNRYWRDKLDTVVEFPIRGLNMSEFVCNLSARPYVYDLIAVSN 307
Query: 351 HHGWSTHSGHYYCFVRTS-SGMWYSLDDNRVVQVNERSVLEQKAYMLFYVR 400
H+G + GHY + + +G WY DD+ V +E ++ + AY+LFY R
Sbjct: 308 HYG-AMGVGHYTAYAKNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFYQR 357
>pdb|2GFO|A Chain A, Structure Of The Catalytic Domain Of Human Ubiquitin
Carboxyl-terminal Hydrolase 8
Length = 396
Score = 113 bits (282), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 96/334 (28%), Positives = 153/334 (45%), Gaps = 34/334 (10%)
Query: 97 AGLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSC---HIAGFCALCAIQKHVSRAL 153
GL NLGNTC+ NS+LQCL LA Y +Q ++ G A + +
Sbjct: 63 TGLRNLGNTCYXNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEFGIIXKA 122
Query: 154 QATG--RILAPKDLVSNLRCISRNFRNSRQEDAHEYMVNLLESMHKCC------------ 199
TG R ++PKD + I+ F Q+D+ E ++ L + +H+
Sbjct: 123 LWTGQYRYISPKDFKITIGKINDQFAGYSQQDSQELLLFLXDGLHEDLNKADNRKRYKEE 182
Query: 200 ----LPSGVPSESA----NAYEKSLVHKIFGGRLRSQVKCTQCSYCSNKFDPFLDLSLEI 251
L +E A +S++ +F G+ +S V+C C S F+ F LSL +
Sbjct: 183 NNDHLDDFKAAEHAWQKHKQLNESIIVALFQGQFKSTVQCLTCHKKSRTFEAFXYLSLPL 242
Query: 252 AKAD--SVLKALNNFTAAELLDGGEKEYHCQRCKQKVRALKQLTVYKAPYVLTIHLKRFR 309
A ++ L F+ E L + ++C C+ + +LK++ ++K P VL +HLKRF
Sbjct: 243 ASTSKCTLQDCLRLFSKEEKLTDNNR-FYCSHCRARRDSLKKIEIWKLPPVLLVHLKRF- 300
Query: 310 AHDP--GQKNDKKVQFG-STLDMKPFVSGSYEGDLKYTLYGVLVHHGWSTHSGHYYCFVR 366
++D QK V F LD+ +V G KY L+ V H+G GHY + +
Sbjct: 301 SYDGRWKQKLQTSVDFPLENLDLSQYVIGPKNNLKKYNLFSVSNHYG-GLDGGHYTAYCK 359
Query: 367 TSSGM-WYSLDDNRVVQVNERSVLEQKAYMLFYV 399
++ W+ DD+ V ++ SV AY+LFY
Sbjct: 360 NAARQRWFKFDDHEVSDISVSSVKSSAAYILFYT 393
>pdb|2F1Z|A Chain A, Crystal Structure Of Hausp
pdb|2F1Z|B Chain B, Crystal Structure Of Hausp
Length = 522
Score = 97.4 bits (241), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 86/336 (25%), Positives = 144/336 (42%), Gaps = 55/336 (16%)
Query: 97 AGLENLGNTCFLNSVLQCLTYTEPL--AAYLQSGKHQSSCHIAGFCALCAIQKHVSRALQ 154
GL+N G TC++NS+LQ L +T L A Y+ + S A+Q+ V LQ
Sbjct: 176 VGLKNQGATCYMNSLLQTLFFTNQLRKAVYMMPTEGDDSSK----SVPLALQR-VFYELQ 230
Query: 155 ATGRILAPKDLVSNL--RCISRNFRNSRQEDAHEYMVNLLESMHKCCLPSGVPSESANAY 212
+ + + K L + + ++ QE + N+ M C+ +P
Sbjct: 231 HSDKPVGTKKLTKSFGWETLDSFMQHDVQELCRVLLDNVENKMKGTCVEGTIP------- 283
Query: 213 EKSLVHKIFGGRLRSQVKCTQCSYCSNKFDPFLDLSLEIAKADSVLKALNNFTAAELLDG 272
K+F G++ S ++C + Y S++ + + D+ L I ++ ++ ++ A E LDG
Sbjct: 284 ------KLFRGKMVSYIQCKEVDYRSDRREDYYDIQLSIKGKKNIFESFVDYVAVEQLDG 337
Query: 273 GEK----EYHCQRCKQKVRALKQLTVYKAPYVLTIHLKRFRAHDPGQKNDKKV----QFG 324
K E+ Q ++ V+ L P VL + L RF +DP + K+ +F
Sbjct: 338 DNKYDAGEHGLQEAEKGVKFL------TLPPVLHLQLMRF-MYDPQTDQNIKINDRFEFP 390
Query: 325 STLDMKPFVSGSYEGD-LKYTLYGVLVHHGWSTHSGHYYCFVR-TSSGMWYSLDDNRVVQ 382
L + F+ + D Y L+ VLVH G H GHY ++ G W DD+ V +
Sbjct: 391 EQLPLDEFLQKTDPKDPANYILHAVLVHSG-DNHGGHYVVYLNPKGDGKWCKFDDDVVSR 449
Query: 383 VNERSVLEQ---------------KAYMLFYVRDRK 403
+ +E AYML Y+R+ K
Sbjct: 450 CTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYIRESK 485
>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 = 96.7 bits (239), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 86/336 (25%), Positives = 144/336 (42%), Gaps = 55/336 (16%)
Query: 97 AGLENLGNTCFLNSVLQCLTYTEPL--AAYLQSGKHQSSCHIAGFCALCAIQKHVSRALQ 154
GL+N G TC++NS+LQ L +T L A Y+ + S A+Q+ V LQ
Sbjct: 7 VGLKNQGATCYMNSLLQTLFFTNQLRKAVYMMPTEGDDSSKSVPL----ALQR-VFYELQ 61
Query: 155 ATGRILAPKDLVSNL--RCISRNFRNSRQEDAHEYMVNLLESMHKCCLPSGVPSESANAY 212
+ + + K L + + ++ QE + N+ M C+ +P
Sbjct: 62 HSDKPVGTKKLTKSFGWETLDSFMQHDVQELCRVLLDNVENKMKGTCVEGTIP------- 114
Query: 213 EKSLVHKIFGGRLRSQVKCTQCSYCSNKFDPFLDLSLEIAKADSVLKALNNFTAAELLDG 272
K+F G++ S ++C + Y S++ + + D+ L I ++ ++ ++ A E LDG
Sbjct: 115 ------KLFRGKMVSYIQCKEVDYRSDRREDYYDIQLSIKGKKNIFESFVDYVAVEQLDG 168
Query: 273 GEK----EYHCQRCKQKVRALKQLTVYKAPYVLTIHLKRFRAHDPGQKNDKKV----QFG 324
K E+ Q ++ V+ L P VL + L RF +DP + K+ +F
Sbjct: 169 DNKYDAGEHGLQEAEKGVKFL------TLPPVLHLQLMRF-MYDPQTDQNIKINDRFEFP 221
Query: 325 STLDMKPFVSGSYEGD-LKYTLYGVLVHHGWSTHSGHYYCFVR-TSSGMWYSLDDNRVVQ 382
L + F+ + D Y L+ VLVH G H GHY ++ G W DD+ V +
Sbjct: 222 EQLPLDEFLQKTDPKDPANYILHAVLVHSG-DNHGGHYVVYLNPKGDGKWCKFDDDVVSR 280
Query: 383 VNERSVLEQ---------------KAYMLFYVRDRK 403
+ +E AYML Y+R+ K
Sbjct: 281 CTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYIRESK 316
>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 = 87.0 bits (214), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 86/338 (25%), Positives = 140/338 (41%), Gaps = 59/338 (17%)
Query: 97 AGLENLGNTCFLNSVLQCLTYTEPL--AAYLQSGKHQSSCHIAGFCALCAIQKHVSRALQ 154
GL+N G TC+ NS+LQ L +T L A Y + S A+Q+ V LQ
Sbjct: 7 VGLKNQGATCYXNSLLQTLFFTNQLRKAVYXXPTEGDDSSK----SVPLALQR-VFYELQ 61
Query: 155 ATGRILAPKDLVSNLRCISRNFRNSRQEDAHEYMVNLLESMHK----CCLPSGVPSESAN 210
+ + + K L + + Q D E LL+++ C+ +P
Sbjct: 62 HSDKPVGTKKLTKSFGW--ETLDSFXQHDVQELCRVLLDNVENKXKGTCVEGTIP----- 114
Query: 211 AYEKSLVHKIFGGRLRSQVKCTQCSYCSNKFDPFLDLSLEIAKADSVLKALNNFTAAELL 270
K+F G+ S ++C + Y S++ + + D+ L I ++ ++ ++ A E L
Sbjct: 115 --------KLFRGKXVSYIQCKEVDYRSDRREDYYDIQLSIKGKKNIFESFVDYVAVEQL 166
Query: 271 DGGEK----EYHCQRCKQKVRALKQLTVYKAPYVLTIHLKRFRAHDPGQKNDKKV----Q 322
DG K E+ Q ++ V+ L P VL + L RF +DP + K+ +
Sbjct: 167 DGDNKYDAGEHGLQEAEKGVKFL------TLPPVLHLQLXRF-XYDPQTDQNIKINDRFE 219
Query: 323 FGSTLDMKPFVSGSYEGD-LKYTLYGVLVHHGWSTHSGHYYCFVR-TSSGMWYSLDDNRV 380
F L + F+ + D Y L+ VLVH G H GHY ++ G W DD+ V
Sbjct: 220 FPEQLPLDEFLQKTDPKDPANYILHAVLVHSG-DNHGGHYVVYLNPKGDGKWCKFDDDVV 278
Query: 381 VQVNERSVLEQ---------------KAYMLFYVRDRK 403
+ + +E AY L Y+R+ K
Sbjct: 279 SRCTKEEAIEHNYGGHDDDLSVRHCTNAYXLVYIRESK 316
>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 = 62.8 bits (151), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 86/393 (21%), Positives = 142/393 (36%), Gaps = 94/393 (23%)
Query: 98 GLENLGNTCFLNSVLQCLTYTEPLAAYLQ--SGKHQSSCHIAGFCALCAIQKHVSRALQA 155
GL NLGNTC++N+ +QC+ L L+ +G ++S +A + A + + ++
Sbjct: 16 GLTNLGNTCYMNATVQCIRSVPELKDALKRYAGALRASGEMASAQYITAALRDLFDSMDK 75
Query: 156 TGRILAPKDLVSNLRCISRNFRNS------RQEDAHEYMVNLLESMHKCCLPSGVPSESA 209
T + P L+ L F Q+DA+E + ++ + + + +S
Sbjct: 76 TSSSIPPIILLQFLHMAFPQFAEKGEQGQYLQQDANECWIQMMRVLQQKL--EAIEDDSV 133
Query: 210 N------------AYEKSLVHKIFGGRLRSQVKCTQC--SYCSNKFDPFLDLSLEIAKAD 255
+ +KSL+ + FG + +KCT+ + + L LS I +
Sbjct: 134 KETDSSSASAATPSKKKSLIDQFFGVEFETTMKCTESEEEEVTKGKENQLQLSCFINQEV 193
Query: 256 SVLKALNNFTAAELLDGGEKEYHCQRCKQKVRALKQLTVYKAPYVLTIHLKRFRAHDPGQ 315
L FT +L E ++ +K + + P LTI + RF +
Sbjct: 194 KYL-----FTGLKLRLQEEITKQSPTLQRNALYIKSSKISRLPAYLTIQMVRFFYKEKES 248
Query: 316 KND---KKVQFGSTLDM------------------------------------------- 329
N K V+F LDM
Sbjct: 249 VNAKVLKDVKFPLMLDMYELCTPELQEKMVSFRSKFKDLEDKKVNQQPNTSDKKSSPQKE 308
Query: 330 ---KPFVSGSYEGDLK------YTLYGVLVHHGWSTHSGHYYCFVRTSSGMWYSLDDNRV 380
+PF S+ D+ Y L VL H G S+ SGHY +V+ W DD++V
Sbjct: 309 VKYEPF---SFADDIGSNNCGYYDLQAVLTHQGRSSSSGHYVSWVKRKQDEWIKFDDDKV 365
Query: 381 VQVNERSVLEQK-------AYMLFYVRDRKNIV 406
V +L AY+L Y R I+
Sbjct: 366 SIVTPEDILRLSGGGDWHIAYVLLYGPRRVEIM 398
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 343 YTLYGVLVHHGWSTHSGHYYCFVRT--SSGMWYSLDDNRVVQVNERSV 388
Y L GV+ H G ++ SGHY F+R WY +D++V V + +
Sbjct: 346 YNLIGVITHQGANSESGHYQAFIRDELDENKWYKFNDDKVSVVEKEKI 393
Score = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 92 FRRIGAGLENLGNTCFLNSVLQCL 115
F ++ G +N GNTC+LN+ LQ L
Sbjct: 20 FAQLPVGFKNXGNTCYLNATLQAL 43
>pdb|3IHP|A Chain A, Covalent Ubiquitin-Usp5 Complex
pdb|3IHP|B Chain B, Covalent Ubiquitin-Usp5 Complex
Length = 854
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 32/133 (24%), Positives = 58/133 (43%), Gaps = 23/133 (17%)
Query: 98 GLENLGNTCFLNSVLQCL--------TYTEPLAAYLQSGKHQSSCHIAGFCALCA---IQ 146
G+ NLGN+C+LNSV+Q L Y + L Q+ + + A +
Sbjct: 346 GIRNLGNSCYLNSVVQVLFSIPDFQRKYVDKLEKIFQNAPTDPTQDFSTQVAKLGHGLLS 405
Query: 147 KHVSRALQATG---RI---------LAPKDLVSNLRCISRNFRNSRQEDAHEYMVNLLES 194
S+ + +G R+ +AP+ + + F +RQ+DA E+ ++L+
Sbjct: 406 GEYSKPVPESGDGERVPEQKEVQDGIAPRMFKALIGKGHPEFSTNRQQDAQEFFLHLINM 465
Query: 195 MHKCCLPSGVPSE 207
+ + C S P+E
Sbjct: 466 VERNCRSSENPNE 478
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
Query: 338 EGDLKYTLYGVLVHHGWSTHSGHYYCFVRTSSGMWYSLDDNRVVQVNERSVLEQKAYMLF 397
+G KY L+ + H G ST GHY C ++ G W +D +V + + Y+ F
Sbjct: 792 DGPGKYQLFAFISHMGTSTMCGHYVCHIK-KEGRWVIYNDQKVCASEKPP--KDLGYIYF 848
Query: 398 YVR 400
Y R
Sbjct: 849 YQR 851
>pdb|3OYO|A Chain A, Crystal Structure Of Hemopexin Fold Protein Cp4 From Cow
Pea
pdb|3OYO|B Chain B, Crystal Structure Of Hemopexin Fold Protein Cp4 From Cow
Pea
Length = 225
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 22/48 (45%)
Query: 90 TTFRRIGAGLENLGNTCFLNSVLQCLTYTEPLAAYLQSGKHQSSCHIA 137
T R I +G +L T F + C +TE AY+ SG H + A
Sbjct: 40 TNLRLISSGFPSLAGTPFAEPGIDCSFHTEASEAYVFSGNHSAYIDYA 87
>pdb|1F8R|A Chain A, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma Complexed With Citrate
pdb|1F8R|B Chain B, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma Complexed With Citrate
pdb|1F8R|C Chain C, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma Complexed With Citrate
pdb|1F8R|D Chain D, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma Complexed With Citrate
pdb|1F8S|A Chain A, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|B Chain B, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|C Chain C, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|D Chain D, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|E Chain E, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|F Chain F, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|G Chain G, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|H Chain H, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|2IID|A Chain A, Structure Of L-Amino Acid Oxidase From Calloselasma
Rhodostoma In Complex With L-Phenylalanine
pdb|2IID|B Chain B, Structure Of L-Amino Acid Oxidase From Calloselasma
Rhodostoma In Complex With L-Phenylalanine
pdb|2IID|C Chain C, Structure Of L-Amino Acid Oxidase From Calloselasma
Rhodostoma In Complex With L-Phenylalanine
pdb|2IID|D Chain D, Structure Of L-Amino Acid Oxidase From Calloselasma
Rhodostoma In Complex With L-Phenylalanine
Length = 498
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 6/44 (13%)
Query: 201 PSGVPSESANAYEKSLVHKIFGGRLRSQVKCTQCSYCSNKFDPF 244
PS + YE+SL G++ ++K T CSY NK+D +
Sbjct: 146 PSEAGKSAGQLYEESL------GKVVEELKRTNCSYILNKYDTY 183
>pdb|1REO|A Chain A, L-Amino Acid Oxidase From Agkistrodon Halys Pallas
pdb|1TDK|A Chain A, L-amino Acid Oxidase From Agkistrodon Halys In Complex
With Suicide Substrate L-vinylglycine
pdb|1TDN|A Chain A, L-Amino Acid Oxidase From Agkistrodon Halys In Complex
With L-Leucine
pdb|1TDO|A Chain A, L-Amino Acid Oxidae From Agkistrodon Halys In Complex With
L- Phenylalanine
Length = 486
Score = 28.5 bits (62), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 6/44 (13%)
Query: 201 PSGVPSESANAYEKSLVHKIFGGRLRSQVKCTQCSYCSNKFDPF 244
PS + YE+SL G++ ++K T CSY NK+D +
Sbjct: 146 PSEEGKSAGQLYEESL------GKVVEELKRTNCSYILNKYDTY 183
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 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,140,051
Number of Sequences: 62578
Number of extensions: 491416
Number of successful extensions: 1118
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1024
Number of HSP's gapped (non-prelim): 42
length of query: 418
length of database: 14,973,337
effective HSP length: 101
effective length of query: 317
effective length of database: 8,652,959
effective search space: 2742988003
effective search space used: 2742988003
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: 53 (25.0 bits)