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= 040385
(827 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 = 166 bits (421), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 79/161 (49%), Positives = 111/161 (68%), Gaps = 3/161 (1%)
Query: 669 GPVTK--KARTEPLSLYTCLEAFLREEPLVPEDMWYCPQCKERRQASKKLDLWRLPEVLV 726
GP+ + K + ++L C+E F E L D WYCP CK+ +QA+KK DLW LP++LV
Sbjct: 198 GPMLQPQKKKKTTVALRDCIELFTTMETLGEHDPWYCPNCKKHQQATKKFDLWSLPKILV 257
Query: 727 IHLKRFSYSRSMKHKLETFVNFPIHDFNLTKYVANKNSSRRQLYELYALTNHYGGMGSGH 786
+HLKRFSY+R + KL+T V FPI N++++V N S+R +Y+L A++NHYG MG GH
Sbjct: 258 VHLKRFSYNRYWRDKLDTVVEFPIRGLNMSEFVCNL-SARPYVYDLIAVSNHYGAMGVGH 316
Query: 787 YTAHIKLLDENRWYNFDDSHISPINEDDVKSAAAYVLFYRR 827
YTA+ K +WY FDDS++S +ED + + AAYVLFY+R
Sbjct: 317 YTAYAKNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFYQR 357
Score = 150 bits (380), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 84/170 (49%), Positives = 95/170 (55%), Gaps = 48/170 (28%)
Query: 286 FMNSAIQCLVHTPEFARYF-REDYRREINWQNPLGMV----------------------- 321
FMNSA+QCL +T YF +++Y EIN NPLGM
Sbjct: 19 FMNSALQCLSNTAPLTDYFLKDEYEAEINRDNPLGMKGEIAEAYAELIKQMWSGRDAHVA 78
Query: 322 ------------------------ELLAFLLDGLHEDLNRVKHKPYIKSKDADGRPDEEV 357
ELLAFLLDGLHEDLNRVK KPY++ KDA+GRPD V
Sbjct: 79 PRMFKTQVGRFAPQFSGYQQQDSQELLAFLLDGLHEDLNRVKKKPYLELKDANGRPDAVV 138
Query: 358 ADEYWANHIARNDSIIVDVCQGQYKSTLVCPVCNKVSVTFDPFMYLSLPL 407
A E W NH RNDS+IVD G +KSTLVCP C KVSVTFDPF YL+LPL
Sbjct: 139 AKEAWENHRLRNDSVIVDTFHGLFKSTLVCPECAKVSVTFDPFCYLTLPL 188
>pdb|3N3K|A Chain A, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 396
Score = 136 bits (343), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 67/151 (44%), Positives = 101/151 (66%), Gaps = 1/151 (0%)
Query: 675 ARTEPLSLYTCLEAFLREEPLVPEDMWYCPQCKERRQASKKLDLWRLPEVLVIHLKRFSY 734
A T +L CL F +EE L + +YC C+ RR + KK+++W+LP VL++HLKRFSY
Sbjct: 243 ASTSKCTLQDCLRLFSKEEKLTDNNRFYCSHCRARRDSLKKIEIWKLPPVLLVHLKRFSY 302
Query: 735 SRSMKHKLETFVNFPIHDFNLTKYVANKNSSRRQLYELYALTNHYGGMGSGHYTAHIKLL 794
K KL+T V+FP+ + +L++YV ++ ++ Y L++++NHYGG+ GHYTA+ K
Sbjct: 303 DGRWKQKLQTSVDFPLENLDLSQYVIGPKNNLKK-YNLFSVSNHYGGLDGGHYTAYCKNA 361
Query: 795 DENRWYNFDDSHISPINEDDVKSAAAYVLFY 825
RW+ FDD +S I+ VKS+AAY+LFY
Sbjct: 362 ARQRWFKFDDHEVSDISVSSVKSSAAYILFY 392
Score = 101 bits (251), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 62/171 (36%), Positives = 81/171 (47%), Gaps = 48/171 (28%)
Query: 285 CFMNSAIQCLVHTPEFARYF-REDYRREINWQNPLGMV---------------------- 321
C+MNS +QCL + P A YF R Y+ +IN N LG
Sbjct: 72 CYMNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEFGIIMKALWTGQYRYI 131
Query: 322 -------------------------ELLAFLLDGLHEDLNRVKHKPYIKSKDADGRPDEE 356
ELL FL+DGLHEDLN+ ++ K ++ D D +
Sbjct: 132 SPKDFKITIGKINDQFAGYSQQDSQELLLFLMDGLHEDLNKADNRKRYKEENNDHLDDFK 191
Query: 357 VADEYWANHIARNDSIIVDVCQGQYKSTLVCPVCNKVSVTFDPFMYLSLPL 407
A+ W H N+SIIV + QGQ+KST+ C C+K S TF+ FMYLSLPL
Sbjct: 192 AAEHAWQKHKQLNESIIVALFQGQFKSTVQCLTCHKKSRTFEAFMYLSLPL 242
>pdb|2GFO|A Chain A, Structure Of The Catalytic Domain Of Human Ubiquitin
Carboxyl-terminal Hydrolase 8
Length = 396
Score = 136 bits (343), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 67/151 (44%), Positives = 101/151 (66%), Gaps = 1/151 (0%)
Query: 675 ARTEPLSLYTCLEAFLREEPLVPEDMWYCPQCKERRQASKKLDLWRLPEVLVIHLKRFSY 734
A T +L CL F +EE L + +YC C+ RR + KK+++W+LP VL++HLKRFSY
Sbjct: 243 ASTSKCTLQDCLRLFSKEEKLTDNNRFYCSHCRARRDSLKKIEIWKLPPVLLVHLKRFSY 302
Query: 735 SRSMKHKLETFVNFPIHDFNLTKYVANKNSSRRQLYELYALTNHYGGMGSGHYTAHIKLL 794
K KL+T V+FP+ + +L++YV ++ ++ Y L++++NHYGG+ GHYTA+ K
Sbjct: 303 DGRWKQKLQTSVDFPLENLDLSQYVIGPKNNLKK-YNLFSVSNHYGGLDGGHYTAYCKNA 361
Query: 795 DENRWYNFDDSHISPINEDDVKSAAAYVLFY 825
RW+ FDD +S I+ VKS+AAY+LFY
Sbjct: 362 ARQRWFKFDDHEVSDISVSSVKSSAAYILFY 392
Score = 94.4 bits (233), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 60/171 (35%), Positives = 78/171 (45%), Gaps = 48/171 (28%)
Query: 285 CFMNSAIQCLVHTPEFARYF-REDYRREINWQNPLGMV---------------------- 321
C+ NS +QCL + P A YF R Y+ +IN N LG
Sbjct: 72 CYXNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEFGIIXKALWTGQYRYI 131
Query: 322 -------------------------ELLAFLLDGLHEDLNRVKHKPYIKSKDADGRPDEE 356
ELL FL DGLHEDLN+ ++ K ++ D D +
Sbjct: 132 SPKDFKITIGKINDQFAGYSQQDSQELLLFLXDGLHEDLNKADNRKRYKEENNDHLDDFK 191
Query: 357 VADEYWANHIARNDSIIVDVCQGQYKSTLVCPVCNKVSVTFDPFMYLSLPL 407
A+ W H N+SIIV + QGQ+KST+ C C+K S TF+ F YLSLPL
Sbjct: 192 AAEHAWQKHKQLNESIIVALFQGQFKSTVQCLTCHKKSRTFEAFXYLSLPL 242
>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 = 117 bits (293), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 66/193 (34%), Positives = 107/193 (55%), Gaps = 7/193 (3%)
Query: 637 STSIVVYVDWSQKLLEKYNTHFLENLLEVFKNG--PVTKKARTE-PLSLYTCLEAFLREE 693
S + ++V + L+ + EVF + P+ KK +SL C F +EE
Sbjct: 179 SKIVDLFVGQLKSCLKCQACGYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEE 238
Query: 694 PLVPEDMWYCPQCKERRQASKKLDLWRLPEVLVIHLKRFSYSRSMKHKLETFVNFPIHDF 753
L E+ C +C+++ +++KKL + R P +LV+HL RFS SR K V+FP+
Sbjct: 239 ELESENAPVCDRCRQKTRSTKKLTVQRFPRILVLHLNRFSASRGSIKKSSVGVDFPLQRL 298
Query: 754 NLTKYVANKNSSRRQLYELYALTNHYGGMGSGHYTAHIKLLDENRWYNFDDSHISPINED 813
+L + ++K S +Y+LYAL NH G + GHYTA + + W+ ++DS +SP++E+
Sbjct: 299 SLGDFASDKAGS--PVYQLYALCNHSGSVHYGHYTALCRC--QTGWHVYNDSRVSPVSEN 354
Query: 814 DVKSAAAYVLFYR 826
V S+ YVLFY+
Sbjct: 355 QVASSEGYVLFYQ 367
Score = 53.5 bits (127), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 37/127 (29%), Positives = 57/127 (44%), Gaps = 27/127 (21%)
Query: 296 HTPEFARYFREDYRREINWQNPLGMVELLAFLLDGLHEDLNRVKHK--PYIKSKDADGRP 353
+ P F+ Y ++D + E L L++ LH ++NR + P + + P
Sbjct: 101 YVPSFSGYSQQDAQ------------EFLKLLMERLHLEINRRGRRAPPILANGPVPSPP 148
Query: 354 -------------DEEVADEYWANHIARNDSIIVDVCQGQYKSTLVCPVCNKVSVTFDPF 400
D++ A+ W ++ R DS IVD+ GQ KS L C C S TF+ F
Sbjct: 149 RRGGALLEEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQACGYRSTTFEVF 208
Query: 401 MYLSLPL 407
LSLP+
Sbjct: 209 CDLSLPI 215
>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 = 117 bits (292), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 66/193 (34%), Positives = 107/193 (55%), Gaps = 7/193 (3%)
Query: 637 STSIVVYVDWSQKLLEKYNTHFLENLLEVFKNG--PVTKKARTE-PLSLYTCLEAFLREE 693
S + ++V + L+ + EVF + P+ KK +SL C F +EE
Sbjct: 173 SKIVDLFVGQLKSCLKCQACGYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEE 232
Query: 694 PLVPEDMWYCPQCKERRQASKKLDLWRLPEVLVIHLKRFSYSRSMKHKLETFVNFPIHDF 753
L E+ C +C+++ +++KKL + R P +LV+HL RFS SR K V+FP+
Sbjct: 233 ELESENAPVCDRCRQKTRSTKKLTVQRFPRILVLHLNRFSASRGSIKKSSVGVDFPLQRL 292
Query: 754 NLTKYVANKNSSRRQLYELYALTNHYGGMGSGHYTAHIKLLDENRWYNFDDSHISPINED 813
+L + ++K S +Y+LYAL NH G + GHYTA + + W+ ++DS +SP++E+
Sbjct: 293 SLGDFASDKAGS--PVYQLYALCNHSGSVHYGHYTALCRC--QTGWHVYNDSRVSPVSEN 348
Query: 814 DVKSAAAYVLFYR 826
V S+ YVLFY+
Sbjct: 349 QVASSEGYVLFYQ 361
Score = 53.1 bits (126), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 37/127 (29%), Positives = 57/127 (44%), Gaps = 27/127 (21%)
Query: 296 HTPEFARYFREDYRREINWQNPLGMVELLAFLLDGLHEDLNRVKHK--PYIKSKDADGRP 353
+ P F+ Y ++D + E L L++ LH ++NR + P + + P
Sbjct: 95 YVPSFSGYSQQDAQ------------EFLKLLMERLHLEINRRGRRAPPILANGPVPSPP 142
Query: 354 -------------DEEVADEYWANHIARNDSIIVDVCQGQYKSTLVCPVCNKVSVTFDPF 400
D++ A+ W ++ R DS IVD+ GQ KS L C C S TF+ F
Sbjct: 143 RRGGALLEEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQACGYRSTTFEVF 202
Query: 401 MYLSLPL 407
LSLP+
Sbjct: 203 CDLSLPI 209
>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 = 116 bits (291), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 66/193 (34%), Positives = 107/193 (55%), Gaps = 7/193 (3%)
Query: 637 STSIVVYVDWSQKLLEKYNTHFLENLLEVFKNG--PVTKKARTE-PLSLYTCLEAFLREE 693
S + ++V + L+ + EVF + P+ KK +SL C F +EE
Sbjct: 160 SKIVDLFVGQLKSCLKCQACGYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEE 219
Query: 694 PLVPEDMWYCPQCKERRQASKKLDLWRLPEVLVIHLKRFSYSRSMKHKLETFVNFPIHDF 753
L E+ C +C+++ +++KKL + R P +LV+HL RFS SR K V+FP+
Sbjct: 220 ELESENAPVCDRCRQKTRSTKKLTVQRFPRILVLHLNRFSASRGSIKKSSVGVDFPLQRL 279
Query: 754 NLTKYVANKNSSRRQLYELYALTNHYGGMGSGHYTAHIKLLDENRWYNFDDSHISPINED 813
+L + ++K S +Y+LYAL NH G + GHYTA + + W+ ++DS +SP++E+
Sbjct: 280 SLGDFASDKAGS--PVYQLYALCNHSGSVHYGHYTALCRC--QTGWHVYNDSRVSPVSEN 335
Query: 814 DVKSAAAYVLFYR 826
V S+ YVLFY+
Sbjct: 336 QVASSEGYVLFYQ 348
Score = 53.1 bits (126), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 37/127 (29%), Positives = 57/127 (44%), Gaps = 27/127 (21%)
Query: 296 HTPEFARYFREDYRREINWQNPLGMVELLAFLLDGLHEDLNRVKHK--PYIKSKDADGRP 353
+ P F+ Y ++D + E L L++ LH ++NR + P + + P
Sbjct: 82 YVPSFSGYSQQDAQ------------EFLKLLMERLHLEINRRGRRAPPILANGPVPSPP 129
Query: 354 -------------DEEVADEYWANHIARNDSIIVDVCQGQYKSTLVCPVCNKVSVTFDPF 400
D++ A+ W ++ R DS IVD+ GQ KS L C C S TF+ F
Sbjct: 130 RRGGALLEEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQACGYRSTTFEVF 189
Query: 401 MYLSLPL 407
LSLP+
Sbjct: 190 CDLSLPI 196
>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 = 110 bits (274), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 60/156 (38%), Positives = 100/156 (64%), Gaps = 3/156 (1%)
Query: 670 PVTKKARTEPLSLYTCLEAFLREEPLVPEDMWYCPQCKERRQASKKLDLWRLPEVLVIHL 729
P+ K+ E ++L C+ F +E+ L ++ C +C+ R++ KK + R P++LV+HL
Sbjct: 206 PIAKRGYPE-VTLMDCMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHL 264
Query: 730 KRFSYSRSMKHKLETFVNFPIHDFNLTKYVANKNSSRRQLYELYALTNHYGGMGSGHYTA 789
KRFS SR KL TFVNFP+ D +L ++ A++N++ +Y LYA++NH G GHYTA
Sbjct: 265 KRFSESRIRTSKLTTFVNFPLRDLDLREF-ASENTN-HAVYNLYAVSNHSGTTMGGHYTA 322
Query: 790 HIKLLDENRWYNFDDSHISPINEDDVKSAAAYVLFY 825
+ + W+ F+DS ++P++ V+++ AY+LFY
Sbjct: 323 YCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFY 358
Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 43/112 (38%), Positives = 59/112 (52%), Gaps = 12/112 (10%)
Query: 296 HTPEFARYFREDYRREINWQNPLGMVELLAFLLDGLHEDLNRVKHKPYIKSKDADGRPDE 355
+ P F Y ++D + E L FLLDGLH ++NRV +P ++ D PD+
Sbjct: 108 YAPRFVGYNQQDAQ------------EFLRFLLDGLHNEVNRVTLRPKSNPENLDHLPDD 155
Query: 356 EVADEYWANHIARNDSIIVDVCQGQYKSTLVCPVCNKVSVTFDPFMYLSLPL 407
E + W ++ R DS I D+ GQ KS+L C C S FDPF LSLP+
Sbjct: 156 EKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPI 207
>pdb|2HD5|A Chain A, Usp2 In Complex With Ubiquitin
Length = 359
Score = 110 bits (274), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 60/156 (38%), Positives = 100/156 (64%), Gaps = 3/156 (1%)
Query: 670 PVTKKARTEPLSLYTCLEAFLREEPLVPEDMWYCPQCKERRQASKKLDLWRLPEVLVIHL 729
P+ K+ E ++L C+ F +E+ L ++ C +C+ R++ KK + R P++LV+HL
Sbjct: 187 PIAKRGYPE-VTLMDCMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHL 245
Query: 730 KRFSYSRSMKHKLETFVNFPIHDFNLTKYVANKNSSRRQLYELYALTNHYGGMGSGHYTA 789
KRFS SR KL TFVNFP+ D +L ++ A++N++ +Y LYA++NH G GHYTA
Sbjct: 246 KRFSESRIRTSKLTTFVNFPLRDLDLREF-ASENTN-HAVYNLYAVSNHSGTTMGGHYTA 303
Query: 790 HIKLLDENRWYNFDDSHISPINEDDVKSAAAYVLFY 825
+ + W+ F+DS ++P++ V+++ AY+LFY
Sbjct: 304 YCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFY 339
Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 54/170 (31%), Positives = 72/170 (42%), Gaps = 47/170 (27%)
Query: 285 CFMNSAIQCLVHTPEFARY-FREDYRREIN--------------------WQ-------- 315
CFMNS +QCL +T E Y + Y R+++ W
Sbjct: 19 CFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLIQTIWTSSPNDVVS 78
Query: 316 ------------------NPLGMVELLAFLLDGLHEDLNRVKHKPYIKSKDADGRPDEEV 357
N E L FLLDGLH ++NRV +P ++ D PD+E
Sbjct: 79 PSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPENLDHLPDDEK 138
Query: 358 ADEYWANHIARNDSIIVDVCQGQYKSTLVCPVCNKVSVTFDPFMYLSLPL 407
+ W ++ R DS I D+ GQ KS+L C C S FDPF LSLP+
Sbjct: 139 GRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPI 188
>pdb|3NHE|A Chain A, High Resolution Structure (1.26a) Of Usp2a In Complex With
Ubiquitin
Length = 348
Score = 109 bits (273), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 60/156 (38%), Positives = 100/156 (64%), Gaps = 3/156 (1%)
Query: 670 PVTKKARTEPLSLYTCLEAFLREEPLVPEDMWYCPQCKERRQASKKLDLWRLPEVLVIHL 729
P+ K+ E ++L C+ F +E+ L ++ C +C+ R++ KK + R P++LV+HL
Sbjct: 187 PIAKRGYPE-VTLMDCMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHL 245
Query: 730 KRFSYSRSMKHKLETFVNFPIHDFNLTKYVANKNSSRRQLYELYALTNHYGGMGSGHYTA 789
KRFS SR KL TFVNFP+ D +L ++ A++N++ +Y LYA++NH G GHYTA
Sbjct: 246 KRFSESRIRTSKLTTFVNFPLRDLDLREF-ASENTN-HAVYNLYAVSNHSGTTMGGHYTA 303
Query: 790 HIKLLDENRWYNFDDSHISPINEDDVKSAAAYVLFY 825
+ + W+ F+DS ++P++ V+++ AY+LFY
Sbjct: 304 YCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFY 339
Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 43/112 (38%), Positives = 59/112 (52%), Gaps = 12/112 (10%)
Query: 296 HTPEFARYFREDYRREINWQNPLGMVELLAFLLDGLHEDLNRVKHKPYIKSKDADGRPDE 355
+ P F Y ++D + E L FLLDGLH ++NRV +P ++ D PD+
Sbjct: 89 YAPRFVGYNQQDAQ------------EFLRFLLDGLHNEVNRVTLRPKSNPENLDHLPDD 136
Query: 356 EVADEYWANHIARNDSIIVDVCQGQYKSTLVCPVCNKVSVTFDPFMYLSLPL 407
E + W ++ R DS I D+ GQ KS+L C C S FDPF LSLP+
Sbjct: 137 EKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPI 188
>pdb|2IBI|A Chain A, Covalent Ubiquitin-Usp2 Complex
Length = 374
Score = 109 bits (273), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 60/156 (38%), Positives = 99/156 (63%), Gaps = 3/156 (1%)
Query: 670 PVTKKARTEPLSLYTCLEAFLREEPLVPEDMWYCPQCKERRQASKKLDLWRLPEVLVIHL 729
P+ K+ E ++L C+ F +E+ L + C +C+ R++ KK + R P++LV+HL
Sbjct: 213 PIAKRGYPE-VTLMDCMRLFTKEDVLDGDAAPTCCRCRGRKRCIKKFSIQRFPKILVLHL 271
Query: 730 KRFSYSRSMKHKLETFVNFPIHDFNLTKYVANKNSSRRQLYELYALTNHYGGMGSGHYTA 789
KRFS SR KL TFVNFP+ D +L ++ A++N++ +Y LYA++NH G GHYTA
Sbjct: 272 KRFSESRIRTSKLTTFVNFPLRDLDLREF-ASENTN-HAVYNLYAVSNHSGTTMGGHYTA 329
Query: 790 HIKLLDENRWYNFDDSHISPINEDDVKSAAAYVLFY 825
+ + W+ F+DS ++P++ V+++ AY+LFY
Sbjct: 330 YCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFY 365
Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 43/112 (38%), Positives = 59/112 (52%), Gaps = 12/112 (10%)
Query: 296 HTPEFARYFREDYRREINWQNPLGMVELLAFLLDGLHEDLNRVKHKPYIKSKDADGRPDE 355
+ P F Y ++D + E L FLLDGLH ++NRV +P ++ D PD+
Sbjct: 115 YAPRFVGYNQQDAQ------------EFLRFLLDGLHNEVNRVTLRPKSNPENLDHLPDD 162
Query: 356 EVADEYWANHIARNDSIIVDVCQGQYKSTLVCPVCNKVSVTFDPFMYLSLPL 407
E + W ++ R DS I D+ GQ KS+L C C S FDPF LSLP+
Sbjct: 163 EKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPI 214
>pdb|3M99|A Chain A, Structure Of The Ubp8-Sgf11-Sgf73-Sus1 Saga Dub Module
Length = 471
Score = 94.4 bits (233), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 51/153 (33%), Positives = 85/153 (55%), Gaps = 12/153 (7%)
Query: 682 LYTCLEAFLREEPLVPEDMWYCPQCKERRQASKKLDLWRLPEVLVIHLKRFSY-SRSMKH 740
LY CL++F ++E L + ++C +C + A K+L + +LP VLV+ LKRF +
Sbjct: 316 LYECLDSFHKKEQL-KDFNYHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNR 374
Query: 741 KLETFVNFPIHDFNLTKYVANKNSSRRQ--------LYELYALTNHYGGMGSGHYTAHIK 792
KL+ F+ FP + N+ Y + K + +YEL + +H G + GHY A K
Sbjct: 375 KLDDFIEFPTY-LNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVNEGHYIAFCK 433
Query: 793 LLDENRWYNFDDSHISPINEDDVKSAAAYVLFY 825
+ +W+ F+DS +S I++++V AY+LFY
Sbjct: 434 -ISGGQWFKFNDSMVSSISQEEVLKEQAYLLFY 465
Score = 38.5 bits (88), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 40/169 (23%), Positives = 68/169 (40%), Gaps = 48/169 (28%)
Query: 285 CFMNSAIQCLVHTPEFARY-FREDYRREINWQNPLGMVELLAFLLDGL-HEDLNRVKHKP 342
CFM+S +QCL+H P F R+ + + ++P + + LD + HE + K
Sbjct: 146 CFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSP---DKCFSCALDKIVHELYGALNTKQ 202
Query: 343 YIKSKDADGRP--------------------DEEVADEYW-----------------ANH 365
S + R ++ A E+W A
Sbjct: 203 ASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQSYVLDLPNAKE 262
Query: 366 IARNDS-----IIVDVCQGQYKSTLVCPVC-NKVSVTFDPFMYLSLPLQ 408
++R ++ I+ V +G +S++VCP C N T DPF+ LSL ++
Sbjct: 263 VSRANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIK 311
>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 = 94.4 bits (233), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 51/153 (33%), Positives = 85/153 (55%), Gaps = 12/153 (7%)
Query: 682 LYTCLEAFLREEPLVPEDMWYCPQCKERRQASKKLDLWRLPEVLVIHLKRFSY-SRSMKH 740
LY CL++F ++E L + ++C +C + A K+L + +LP VLV+ LKRF +
Sbjct: 321 LYECLDSFHKKEQL-KDFNYHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNR 379
Query: 741 KLETFVNFPIHDFNLTKYVANKNSSRRQ--------LYELYALTNHYGGMGSGHYTAHIK 792
KL+ F+ FP + N+ Y + K + +YEL + +H G + GHY A K
Sbjct: 380 KLDDFIEFPTY-LNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVNEGHYIAFCK 438
Query: 793 LLDENRWYNFDDSHISPINEDDVKSAAAYVLFY 825
+ +W+ F+DS +S I++++V AY+LFY
Sbjct: 439 -ISGGQWFKFNDSMVSSISQEEVLKEQAYLLFY 470
Score = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 40/169 (23%), Positives = 68/169 (40%), Gaps = 48/169 (28%)
Query: 285 CFMNSAIQCLVHTPEFARY-FREDYRREINWQNPLGMVELLAFLLDGL-HEDLNRVKHKP 342
CFM+S +QCL+H P F R+ + + ++P + + LD + HE + K
Sbjct: 151 CFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSP---DKCFSCALDKIVHELYGALNTKQ 207
Query: 343 YIKSKDADGRP--------------------DEEVADEYW-----------------ANH 365
S + R ++ A E+W A
Sbjct: 208 ASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQSYVLDLPNAKE 267
Query: 366 IARNDS-----IIVDVCQGQYKSTLVCPVC-NKVSVTFDPFMYLSLPLQ 408
++R ++ I+ V +G +S++VCP C N T DPF+ LSL ++
Sbjct: 268 VSRANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIK 316
>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 = 94.0 bits (232), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 51/153 (33%), Positives = 85/153 (55%), Gaps = 12/153 (7%)
Query: 682 LYTCLEAFLREEPLVPEDMWYCPQCKERRQASKKLDLWRLPEVLVIHLKRFSY-SRSMKH 740
LY CL++F ++E L + ++C +C + A K+L + +LP VLV+ LKRF +
Sbjct: 321 LYECLDSFHKKEQL-KDFNYHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNR 379
Query: 741 KLETFVNFPIHDFNLTKYVANKNSSRRQ--------LYELYALTNHYGGMGSGHYTAHIK 792
KL+ F+ FP + N+ Y + K + +YEL + +H G + GHY A K
Sbjct: 380 KLDDFIEFPTY-LNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVNEGHYIAFCK 438
Query: 793 LLDENRWYNFDDSHISPINEDDVKSAAAYVLFY 825
+ +W+ F+DS +S I++++V AY+LFY
Sbjct: 439 -ISGGQWFKFNDSMVSSISQEEVLKEQAYLLFY 470
Score = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 40/169 (23%), Positives = 68/169 (40%), Gaps = 48/169 (28%)
Query: 285 CFMNSAIQCLVHTPEFARY-FREDYRREINWQNPLGMVELLAFLLDGL-HEDLNRVKHKP 342
CFM+S +QCL+H P F R+ + + ++P + + LD + HE + K
Sbjct: 151 CFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSP---DKCFSCALDKIVHELYGALNTKQ 207
Query: 343 YIKSKDADGRP--------------------DEEVADEYW-----------------ANH 365
S + R ++ A E+W A
Sbjct: 208 ASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQSYVLDLPNAKE 267
Query: 366 IARNDS-----IIVDVCQGQYKSTLVCPVC-NKVSVTFDPFMYLSLPLQ 408
++R ++ I+ V +G +S++VCP C N T DPF+ LSL ++
Sbjct: 268 VSRANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIK 316
>pdb|3JYU|A Chain A, Crystal Structure Of The N-Terminal Domains Of The
Ubiquitin Specific Peptidase 4 (Usp4)
pdb|3JYU|B Chain B, Crystal Structure Of The N-Terminal Domains Of The
Ubiquitin Specific Peptidase 4 (Usp4)
Length = 231
Score = 72.8 bits (177), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 60/209 (28%), Positives = 100/209 (47%), Gaps = 26/209 (12%)
Query: 1 WWQHWIDYVNQDQPNNTGDGSSLLEHFNSAGSSASKRPSGIDNSDLVNDATAEDPGAGPE 60
W++ W YV D + D ++ EH + P IDNS L +D ++
Sbjct: 43 WFKQWKKYVGFD----SWDXYNVGEH--------NLFPGPIDNSGLFSDPESQT------ 84
Query: 61 IVDTLLEGRDYILLPQEVWNQLHSWYG---GGPTLARKVISSGLSQTELAVEVYPLRLQL 117
+ + L++ DY+L+P E WN+L +WYG G + RKV+ GL VEVY L L+L
Sbjct: 85 LKEHLIDELDYVLVPAEAWNKLLNWYGCVEGQQPIVRKVVEHGLFVKHCKVEVYLLELKL 144
Query: 118 LVM--PRGECSTIRISKKETIGELHRRACSIFYLNLE-QICIWDYYGHRKHALMNDMDRT 174
P S SK +TI + + +F + E + +W+ Y + ++ +D T
Sbjct: 145 CENSDPTNVLSC-HFSKADTIATIEKEXRKLFNIPAERETRLWNKYXSNTYEQLSKLDNT 203
Query: 175 LDDANIQMDQDILVEVLDNVNGTNCKSSI 203
+ DA + Q +++E N +GT + S+
Sbjct: 204 IQDAGLYQGQVLVIEP-QNEDGTWPRQSL 231
>pdb|3PPA|A Chain A, Structure Of The Dusp-Ubl Domains Of Usp15
Length = 237
Score = 71.2 bits (173), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 51/157 (32%), Positives = 77/157 (49%), Gaps = 11/157 (7%)
Query: 38 PSGIDNSDLVNDATAEDPGAGPEIVDTLLEGRDYILLPQEVWNQLHSWYG---GGPTLAR 94
P IDNS L+ D A+ + + L++ DYILLP E WN+L SWY G +AR
Sbjct: 76 PGPIDNSGLLKDGDAQ------SLKEHLIDELDYILLPTEGWNKLVSWYTLMEGQEPIAR 129
Query: 95 KVISSGLSQTELAVEVYPLRLQLLVMPR-GECSTIRISKKETIGELHRRACSIFYL-NLE 152
KV+ G+ VEVY L+L T R SK +TI + + IF + + +
Sbjct: 130 KVVEQGMFVKHCKVEVYLTELKLCENGNMNNVVTRRFSKADTIDTIEKEIRKIFSIPDEK 189
Query: 153 QICIWDYYGHRKHALMNDMDRTLDDANIQMDQDILVE 189
+ +W+ Y +N D T+ DA + Q +++E
Sbjct: 190 ETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVIE 226
>pdb|3T9L|A Chain A, Structure Of N-Terminal Dusp-Ubl Domains Of Human Usp15
Length = 230
Score = 71.2 bits (173), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 54/167 (32%), Positives = 83/167 (49%), Gaps = 16/167 (9%)
Query: 38 PSGIDNSDLVNDATAEDPGAGPEIVDTLLEGRDYILLPQEVWNQLHSWYG---GGPTLAR 94
P IDNS L+ D A+ + + L++ DYILLP E WN+L SWY G +AR
Sbjct: 62 PGPIDNSGLLKDGDAQ------SLKEHLIDELDYILLPTEGWNKLVSWYTLMEGQEPIAR 115
Query: 95 KVISSGLSQTELAVEVYPLRLQLLVMPRGECSTI---RISKKETIGELHRRACSIFYL-N 150
KV+ G+ VEVY L+L G + + R SK +TI + + IF + +
Sbjct: 116 KVVEQGMFVKHCKVEVYLTELKLC--ENGNMNNVVTRRFSKADTIDTIEKEIRKIFSIPD 173
Query: 151 LEQICIWDYYGHRKHALMNDMDRTLDDANIQMDQDILVEVLDNVNGT 197
++ +W+ Y +N D T+ DA + Q +++E N +GT
Sbjct: 174 EKETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVIEQ-KNEDGT 219
>pdb|4A3O|A Chain A, Crystal Structure Of The Usp15 Dusp-Ubl Monomer
pdb|4A3O|B Chain B, Crystal Structure Of The Usp15 Dusp-Ubl Monomer
Length = 220
Score = 71.2 bits (173), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 54/165 (32%), Positives = 81/165 (49%), Gaps = 12/165 (7%)
Query: 38 PSGIDNSDLVNDATAEDPGAGPEIVDTLLEGRDYILLPQEVWNQLHSWYG---GGPTLAR 94
P IDNS L+ D A+ + + L++ DYILLP E WN+L SWY G +AR
Sbjct: 59 PGPIDNSGLLKDGDAQ------SLKEHLIDELDYILLPTEGWNKLVSWYTLMEGQEPIAR 112
Query: 95 KVISSGLSQTELAVEVYPLRLQLLVMPR-GECSTIRISKKETIGELHRRACSIFYL-NLE 152
KV+ G+ VEVY L+L T R SK +TI + + IF + + +
Sbjct: 113 KVVEQGMFVKHCKVEVYLTELKLCENGNMNNVVTRRFSKADTIDTIEKEIRKIFSIPDEK 172
Query: 153 QICIWDYYGHRKHALMNDMDRTLDDANIQMDQDILVEVLDNVNGT 197
+ +W+ Y +N D T+ DA + Q +++E N +GT
Sbjct: 173 ETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVIEQ-KNEDGT 216
>pdb|3PV1|A Chain A, Crystal Structure Of The Usp15 Dusp-Ubl Domains
pdb|3PV1|B Chain B, Crystal Structure Of The Usp15 Dusp-Ubl Domains
Length = 225
Score = 71.2 bits (173), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 54/165 (32%), Positives = 81/165 (49%), Gaps = 12/165 (7%)
Query: 38 PSGIDNSDLVNDATAEDPGAGPEIVDTLLEGRDYILLPQEVWNQLHSWYG---GGPTLAR 94
P IDNS L+ D A+ + + L++ DYILLP E WN+L SWY G +AR
Sbjct: 64 PGPIDNSGLLKDGDAQ------SLKEHLIDELDYILLPTEGWNKLVSWYTLMEGQEPIAR 117
Query: 95 KVISSGLSQTELAVEVYPLRLQLLVMPR-GECSTIRISKKETIGELHRRACSIFYL-NLE 152
KV+ G+ VEVY L+L T R SK +TI + + IF + + +
Sbjct: 118 KVVEQGMFVKHCKVEVYLTELKLCENGNMNNVVTRRFSKADTIDTIEKEIRKIFSIPDEK 177
Query: 153 QICIWDYYGHRKHALMNDMDRTLDDANIQMDQDILVEVLDNVNGT 197
+ +W+ Y +N D T+ DA + Q +++E N +GT
Sbjct: 178 ETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVIEQ-KNEDGT 221
>pdb|4A3P|A Chain A, Structure Of Usp15 Dusp-Ubl Deletion Mutant
Length = 217
Score = 67.4 bits (163), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 54/165 (32%), Positives = 81/165 (49%), Gaps = 15/165 (9%)
Query: 38 PSGIDNSDLVNDATAEDPGAGPEIVDTLLEGRDYILLPQEVWNQLHSWYG---GGPTLAR 94
P IDNS L+ D A+ + + L++ DYILLP E WN+L SWY G +AR
Sbjct: 59 PGPIDNSGLLKDGDAQ------SLKEHLIDELDYILLPTEGWNKLVSWYTLMEGQEPIAR 112
Query: 95 KVISSGLSQTELAVEVYPLRLQLLVMPR-GECSTIRISKKETIGELHRRACSIFYL-NLE 152
KV+ G+ VEVY L+L T R SK +TI + + IF + + +
Sbjct: 113 KVVEQGMF---CKVEVYLTELKLCENGNMNNVVTRRFSKADTIDTIEKEIRKIFSIPDEK 169
Query: 153 QICIWDYYGHRKHALMNDMDRTLDDANIQMDQDILVEVLDNVNGT 197
+ +W+ Y +N D T+ DA + Q +++E N +GT
Sbjct: 170 ETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVIEQ-KNEDGT 213
>pdb|3LMN|A Chain A, Oligomeric Structure Of The Dusp Domain Of Human Usp15
pdb|3LMN|B Chain B, Oligomeric Structure Of The Dusp Domain Of Human Usp15
Length = 135
Score = 53.1 bits (126), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 42/77 (54%), Gaps = 9/77 (11%)
Query: 38 PSGIDNSDLVNDATAEDPGAGPEIVDTLLEGRDYILLPQEVWNQLHSWYG---GGPTLAR 94
P IDNS L+ D A+ + + L++ DYILLP E WN+L SWY G +AR
Sbjct: 64 PGPIDNSGLLKDGDAQ------SLKEHLIDELDYILLPTEGWNKLVSWYTLMEGQEPIAR 117
Query: 95 KVISSGLSQTELAVEVY 111
KV+ G+ VEVY
Sbjct: 118 KVVEQGMFVKHCKVEVY 134
>pdb|1W6V|A Chain A, Solution Structure Of The Dusp Domain Of Husp15
Length = 141
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/63 (42%), Positives = 36/63 (57%), Gaps = 9/63 (14%)
Query: 38 PSGIDNSDLVNDATAEDPGAGPEIVDTLLEGRDYILLPQEVWNQLHSWYG---GGPTLAR 94
P IDNS L+ D A+ + + L++ DYILLP E WN+L SWY G +AR
Sbjct: 83 PGPIDNSGLLKDGDAQ------SLKEHLIDELDYILLPTEGWNKLVSWYTLMEGQEPIAR 136
Query: 95 KVI 97
KV+
Sbjct: 137 KVV 139
>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 = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 2/54 (3%)
Query: 769 LYELYALTNHYGGMG-SGHYTAHIK-LLDENRWYNFDDSHISPINEDDVKSAAA 820
+Y L + H G SGHY A I+ LDEN+WY F+D +S + ++ ++S A
Sbjct: 345 VYNLIGVITHQGANSESGHYQAFIRDELDENKWYKFNDDKVSVVEKEKIESLAG 398
>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 = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 43/101 (42%), Gaps = 3/101 (2%)
Query: 710 RQASKKLDLWRLPEVLVIHLKRFSYSRSMKH--KLETFVNFPIHDFNLTKYVANKNSSRR 767
++A K + LP VL + L RF Y K+ FP L +++ +
Sbjct: 180 QEAEKGVKFLTLPPVLHLQLXRFXYDPQTDQNIKINDRFEFP-EQLPLDEFLQKTDPKDP 238
Query: 768 QLYELYALTNHYGGMGSGHYTAHIKLLDENRWYNFDDSHIS 808
Y L+A+ H G GHY ++ + +W FDD +S
Sbjct: 239 ANYILHAVLVHSGDNHGGHYVVYLNPKGDGKWCKFDDDVVS 279
>pdb|2F1Z|A Chain A, Crystal Structure Of Hausp
pdb|2F1Z|B Chain B, Crystal Structure Of Hausp
Length = 522
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 43/101 (42%), Gaps = 3/101 (2%)
Query: 710 RQASKKLDLWRLPEVLVIHLKRFSYSRSMKH--KLETFVNFPIHDFNLTKYVANKNSSRR 767
++A K + LP VL + L RF Y K+ FP L +++ +
Sbjct: 349 QEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFP-EQLPLDEFLQKTDPKDP 407
Query: 768 QLYELYALTNHYGGMGSGHYTAHIKLLDENRWYNFDDSHIS 808
Y L+A+ H G GHY ++ + +W FDD +S
Sbjct: 408 ANYILHAVLVHSGDNHGGHYVVYLNPKGDGKWCKFDDDVVS 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 = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 43/101 (42%), Gaps = 3/101 (2%)
Query: 710 RQASKKLDLWRLPEVLVIHLKRFSYSRSMKH--KLETFVNFPIHDFNLTKYVANKNSSRR 767
++A K + LP VL + L RF Y K+ FP L +++ +
Sbjct: 180 QEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFP-EQLPLDEFLQKTDPKDP 238
Query: 768 QLYELYALTNHYGGMGSGHYTAHIKLLDENRWYNFDDSHIS 808
Y L+A+ H G GHY ++ + +W FDD +S
Sbjct: 239 ANYILHAVLVHSGDNHGGHYVVYLNPKGDGKWCKFDDDVVS 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 = 36.6 bits (83), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 9/64 (14%)
Query: 770 YELYALTNHYG-GMGSGHYTAHIKLLDENRWYNFDDSHISPINEDDVKSAA-------AY 821
Y+L A+ H G SGHY + +K ++ W FDD +S + +D+ + AY
Sbjct: 328 YDLQAVLTHQGRSSSSGHYVSWVKR-KQDEWIKFDDDKVSIVTPEDILRLSGGGDWHIAY 386
Query: 822 VLFY 825
VL Y
Sbjct: 387 VLLY 390
>pdb|1OOE|A Chain A, Structural Genomics Of Caenorhabditis Elegans :
Dihydropteridine Reductase
pdb|1OOE|B Chain B, Structural Genomics Of Caenorhabditis Elegans :
Dihydropteridine Reductase
Length = 236
Score = 30.0 bits (66), Expect = 6.1, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 7/63 (11%)
Query: 178 ANIQMDQDILVEVLDNVNGTNCKSSIQDNGFAEKKASSVLVEPSKSSLSIAGGWSASKGT 237
AN Q D +ILV+ N N T Q+ E+ ASS+ +AGGW+ +
Sbjct: 37 ANDQADSNILVD--GNKNWTE-----QEQSILEQTASSLQGSQVDGVFCVAGGWAGGSAS 89
Query: 238 SRN 240
S++
Sbjct: 90 SKD 92
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
0.316 0.132 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,247,581
Number of Sequences: 62578
Number of extensions: 992382
Number of successful extensions: 2284
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2199
Number of HSP's gapped (non-prelim): 58
length of query: 827
length of database: 14,973,337
effective HSP length: 107
effective length of query: 720
effective length of database: 8,277,491
effective search space: 5959793520
effective search space used: 5959793520
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)