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= 001134
(1145 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 = 145 bits (365), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 103/334 (30%), Positives = 164/334 (49%), Gaps = 36/334 (10%)
Query: 587 GLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKECAKK--DWCFTCELENLI------ 638
GLIN GN+C+ + +LQCL P + + +HS C + D CF+C L+ ++
Sbjct: 143 GLINMGNTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGA 202
Query: 639 LRAKDGKSPLSP-------IGILSRLQSIGSQLGNGREEDAHEFLRYAIDTM-QSVCIEE 690
L K S + I +L+ I L ++DAHEF ++ I+ + QS ++
Sbjct: 203 LNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQSYVLDL 262
Query: 691 AGVNASGPLEDETT--LIGLTFGGYLRSKIKCTKCHGKSERQ-ERMMDLTVEIEGDIGNL 747
++ ++ F G L S I C C S+ + +DL+++I+ D L
Sbjct: 263 PNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIK-DKKKL 321
Query: 748 EEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLTIVEAPNILTIALKRFQ---SGKFGK 804
E L + E L N Y C C S + A K+L I + P++L + LKRF+ +G K
Sbjct: 322 YECLDSFHKKEQLKDFN-YHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRK 380
Query: 805 LNKSIQFPEILDLAPYMS-------GTSDKLP--IYRLYGVVVHLDIMNAAFSGHYVCYV 855
L+ I+FP L++ Y S + K+P IY L G+V H +N GHY+ +
Sbjct: 381 LDDFIEFPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVN---EGHYIAFC 437
Query: 856 KSTQNKWFKVDDSTVTAVERERVLTEGAYMLLYA 889
K + +WFK +DS V+++ +E VL E AY+L Y
Sbjct: 438 KISGGQWFKFNDSMVSSISQEEVLKEQAYLLFYT 471
>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 = 142 bits (359), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 102/334 (30%), Positives = 164/334 (49%), Gaps = 36/334 (10%)
Query: 587 GLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKECAKK--DWCFTCELENLI------ 638
GLIN G++C+ + +LQCL P + + +HS C + D CF+C L+ ++
Sbjct: 143 GLINMGSTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGA 202
Query: 639 LRAKDGKSPLSP-------IGILSRLQSIGSQLGNGREEDAHEFLRYAIDTM-QSVCIEE 690
L K S + I +L+ I L ++DAHEF ++ I+ + QS ++
Sbjct: 203 LNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQSYVLDL 262
Query: 691 AGVNASGPLEDETT--LIGLTFGGYLRSKIKCTKCHGKSERQ-ERMMDLTVEIEGDIGNL 747
++ ++ F G L S I C C S+ + +DL+++I+ D L
Sbjct: 263 PNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIK-DKKKL 321
Query: 748 EEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLTIVEAPNILTIALKRFQ---SGKFGK 804
E L + E L N Y C C S + A K+L I + P++L + LKRF+ +G K
Sbjct: 322 YECLDSFHKKEQLKDFN-YHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRK 380
Query: 805 LNKSIQFPEILDLAPYMS-------GTSDKLP--IYRLYGVVVHLDIMNAAFSGHYVCYV 855
L+ I+FP L++ Y S + K+P IY L G+V H +N GHY+ +
Sbjct: 381 LDDFIEFPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVN---EGHYIAFC 437
Query: 856 KSTQNKWFKVDDSTVTAVERERVLTEGAYMLLYA 889
K + +WFK +DS V+++ +E VL E AY+L Y
Sbjct: 438 KISGGQWFKFNDSMVSSISQEEVLKEQAYLLFYT 471
>pdb|3M99|A Chain A, Structure Of The Ubp8-Sgf11-Sgf73-Sus1 Saga Dub Module
Length = 471
Score = 142 bits (359), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 102/334 (30%), Positives = 164/334 (49%), Gaps = 36/334 (10%)
Query: 587 GLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKECAKK--DWCFTCELENLI------ 638
GLIN G++C+ + +LQCL P + + +HS C + D CF+C L+ ++
Sbjct: 138 GLINMGSTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGA 197
Query: 639 LRAKDGKSPLSP-------IGILSRLQSIGSQLGNGREEDAHEFLRYAIDTM-QSVCIEE 690
L K S + I +L+ I L ++DAHEF ++ I+ + QS ++
Sbjct: 198 LNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQSYVLDL 257
Query: 691 AGVNASGPLEDETT--LIGLTFGGYLRSKIKCTKCHGKSERQ-ERMMDLTVEIEGDIGNL 747
++ ++ F G L S I C C S+ + +DL+++I+ D L
Sbjct: 258 PNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIK-DKKKL 316
Query: 748 EEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLTIVEAPNILTIALKRFQ---SGKFGK 804
E L + E L N Y C C S + A K+L I + P++L + LKRF+ +G K
Sbjct: 317 YECLDSFHKKEQLKDFN-YHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRK 375
Query: 805 LNKSIQFPEILDLAPYMS-------GTSDKLP--IYRLYGVVVHLDIMNAAFSGHYVCYV 855
L+ I+FP L++ Y S + K+P IY L G+V H +N GHY+ +
Sbjct: 376 LDDFIEFPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVN---EGHYIAFC 432
Query: 856 KSTQNKWFKVDDSTVTAVERERVLTEGAYMLLYA 889
K + +WFK +DS V+++ +E VL E AY+L Y
Sbjct: 433 KISGGQWFKFNDSMVSSISQEEVLKEQAYLLFYT 466
>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 = 117 bits (294), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 100/339 (29%), Positives = 152/339 (44%), Gaps = 35/339 (10%)
Query: 586 CGLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKECAKKDWCFTCELENL--ILRAKD 643
GL N GN+C+ N +LQCL+ T L Y LQ L+ ++ T +E +++
Sbjct: 29 AGLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLIQTIW 88
Query: 644 GKSP---LSPIGILSRLQSIGSQLGNGREEDAHEFLRYAIDTMQSVCIEEAGVNASGP-- 698
SP +SP +++Q + ++DA EFLR+ +D + + S P
Sbjct: 89 TSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPEN 148
Query: 699 -----------------LEDETTLIGLTFGGYLRSKIKCTKCHGKSERQERMMDLTVEIE 741
LE E + IG F G L+S + CT C S + DL++ I
Sbjct: 149 LDHLPDDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPIA 208
Query: 742 GD---IGNLEEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLTIVEAPNILTIALKRFQ 798
L + +R +T ++LDG+ K C RC+ ++ KK +I P IL + LKRF
Sbjct: 209 KRGYPEVTLMDCMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFS 268
Query: 799 SGKF--GKLNKSIQFP-EILDLAPYMSGTSDKLPIYRLYGVVVHLDIMNAAFSGHYVCYV 855
+ KL + FP LDL + S ++ +Y LY V H GHY Y
Sbjct: 269 ESRIRTSKLTTFVNFPLRDLDLREFASENTNH-AVYNLYAVSNH---SGTTMGGHYTAYC 324
Query: 856 KST-QNKWFKVDDSTVTAVERERVLTEGAYMLLYARCSP 893
+S +W +DS+VT + +V T AY+L Y SP
Sbjct: 325 RSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELASP 363
>pdb|2HD5|A Chain A, Usp2 In Complex With Ubiquitin
Length = 359
Score = 117 bits (294), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 100/339 (29%), Positives = 152/339 (44%), Gaps = 35/339 (10%)
Query: 586 CGLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKECAKKDWCFTCELENL--ILRAKD 643
GL N GN+C+ N +LQCL+ T L Y LQ L+ ++ T +E +++
Sbjct: 10 AGLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLIQTIW 69
Query: 644 GKSP---LSPIGILSRLQSIGSQLGNGREEDAHEFLRYAIDTMQSVCIEEAGVNASGP-- 698
SP +SP +++Q + ++DA EFLR+ +D + + S P
Sbjct: 70 TSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPEN 129
Query: 699 -----------------LEDETTLIGLTFGGYLRSKIKCTKCHGKSERQERMMDLTVEIE 741
LE E + IG F G L+S + CT C S + DL++ I
Sbjct: 130 LDHLPDDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPIA 189
Query: 742 GD---IGNLEEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLTIVEAPNILTIALKRFQ 798
L + +R +T ++LDG+ K C RC+ ++ KK +I P IL + LKRF
Sbjct: 190 KRGYPEVTLMDCMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFS 249
Query: 799 SGKF--GKLNKSIQFP-EILDLAPYMSGTSDKLPIYRLYGVVVHLDIMNAAFSGHYVCYV 855
+ KL + FP LDL + S ++ +Y LY V H GHY Y
Sbjct: 250 ESRIRTSKLTTFVNFPLRDLDLREFASENTNH-AVYNLYAVSNH---SGTTMGGHYTAYC 305
Query: 856 KST-QNKWFKVDDSTVTAVERERVLTEGAYMLLYARCSP 893
+S +W +DS+VT + +V T AY+L Y SP
Sbjct: 306 RSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELASP 344
>pdb|2IBI|A Chain A, Covalent Ubiquitin-Usp2 Complex
Length = 374
Score = 116 bits (290), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 99/339 (29%), Positives = 151/339 (44%), Gaps = 35/339 (10%)
Query: 586 CGLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKECAKKDWCFTCELENL--ILRAKD 643
GL N GN+C+ N +LQCL+ T L Y LQ L+ ++ T +E +++
Sbjct: 36 AGLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLIQTIW 95
Query: 644 GKSP---LSPIGILSRLQSIGSQLGNGREEDAHEFLRYAIDTMQSVCIEEAGVNASGP-- 698
SP +SP +++Q + ++DA EFLR+ +D + + S P
Sbjct: 96 TSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPEN 155
Query: 699 -----------------LEDETTLIGLTFGGYLRSKIKCTKCHGKSERQERMMDLTVEIE 741
LE E + IG F G L+S + CT C S + DL++ I
Sbjct: 156 LDHLPDDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPIA 215
Query: 742 GD---IGNLEEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLTIVEAPNILTIALKRFQ 798
L + +R +T ++LDG+ C RC+ ++ KK +I P IL + LKRF
Sbjct: 216 KRGYPEVTLMDCMRLFTKEDVLDGDAAPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFS 275
Query: 799 SGKF--GKLNKSIQFP-EILDLAPYMSGTSDKLPIYRLYGVVVHLDIMNAAFSGHYVCYV 855
+ KL + FP LDL + S ++ +Y LY V H GHY Y
Sbjct: 276 ESRIRTSKLTTFVNFPLRDLDLREFASENTNH-AVYNLYAVSNH---SGTTMGGHYTAYC 331
Query: 856 KST-QNKWFKVDDSTVTAVERERVLTEGAYMLLYARCSP 893
+S +W +DS+VT + +V T AY+L Y SP
Sbjct: 332 RSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELASP 370
>pdb|3N3K|A Chain A, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 396
Score = 115 bits (289), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 92/335 (27%), Positives = 149/335 (44%), Gaps = 37/335 (11%)
Query: 587 GLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKECAKKDWCF----TCELENLILRA- 641
GL N GN+CY N +LQCL P L YF + + + + + E +I++A
Sbjct: 64 GLRNLGNTCYMNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEFGIIMKAL 123
Query: 642 -KDGKSPLSPIGILSRLQSIGSQLGNGREEDAHEFLRYAIDTMQ---------------- 684
+SP + I Q ++D+ E L + +D +
Sbjct: 124 WTGQYRYISPKDFKITIGKINDQFAGYSQQDSQELLLFLMDGLHEDLNKADNRKRYKEEN 183
Query: 685 -----SVCIEEAGVNASGPLEDETTLIGLTFGGYLRSKIKCTKCHGKSERQERMMDLTVE 739
E L +E+ ++ L F G +S ++C CH KS E M L++
Sbjct: 184 NDHLDDFKAAEHAWQKHKQL-NESIIVAL-FQGQFKSTVQCLTCHKKSRTFEAFMYLSLP 241
Query: 740 IEGDIG-NLEEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLTIVEAPNILTIALKRFQ 798
+ L++ LR ++ E L N++ C C++ + KK+ I + P +L + LKRF
Sbjct: 242 LASTSKCTLQDCLRLFSKEEKLTDNNRFYCSHCRARRDSLKKIEIWKLPPVLLVHLKRFS 301
Query: 799 -SGKFG-KLNKSIQFP-EILDLAPYMSGTSDKLPIYRLYGVVVHLDIMNAAFSGHYVCYV 855
G++ KL S+ FP E LDL+ Y+ G + L Y L+ V H ++ GHY Y
Sbjct: 302 YDGRWKQKLQTSVDFPLENLDLSQYVIGPKNNLKKYNLFSVSNHYGGLDG---GHYTAYC 358
Query: 856 K-STQNKWFKVDDSTVTAVERERVLTEGAYMLLYA 889
K + + +WFK DD V+ + V + AY+L Y
Sbjct: 359 KNAARQRWFKFDDHEVSDISVSSVKSSAAYILFYT 393
>pdb|3NHE|A Chain A, High Resolution Structure (1.26a) Of Usp2a In Complex With
Ubiquitin
Length = 348
Score = 114 bits (286), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 99/339 (29%), Positives = 151/339 (44%), Gaps = 35/339 (10%)
Query: 586 CGLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKECAKKDWCFTCELENL--ILRAKD 643
GL N GN+ + N +LQCL+ T L Y LQ L+ ++ T +E +++
Sbjct: 10 AGLRNLGNTXFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLIQTIW 69
Query: 644 GKSP---LSPIGILSRLQSIGSQLGNGREEDAHEFLRYAIDTMQSVCIEEAGVNASGP-- 698
SP +SP +++Q + ++DA EFLR+ +D + + S P
Sbjct: 70 TSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPEN 129
Query: 699 -----------------LEDETTLIGLTFGGYLRSKIKCTKCHGKSERQERMMDLTVEIE 741
LE E + IG F G L+S + CT C S + DL++ I
Sbjct: 130 LDHLPDDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPIA 189
Query: 742 GD---IGNLEEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLTIVEAPNILTIALKRFQ 798
L + +R +T ++LDG+ K C RC+ ++ KK +I P IL + LKRF
Sbjct: 190 KRGYPEVTLMDCMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFS 249
Query: 799 SGKF--GKLNKSIQFP-EILDLAPYMSGTSDKLPIYRLYGVVVHLDIMNAAFSGHYVCYV 855
+ KL + FP LDL + S ++ +Y LY V H GHY Y
Sbjct: 250 ESRIRTSKLTTFVNFPLRDLDLREFASENTNH-AVYNLYAVSNH---SGTTMGGHYTAYC 305
Query: 856 KST-QNKWFKVDDSTVTAVERERVLTEGAYMLLYARCSP 893
+S +W +DS+VT + +V T AY+L Y SP
Sbjct: 306 RSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELASP 344
>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 = 4e-25, Method: Compositional matrix adjust.
Identities = 92/362 (25%), Positives = 161/362 (44%), Gaps = 58/362 (16%)
Query: 581 VELQP--CGLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKECAKKDWC-----FTCE 633
+ +QP CGL N GN+ + N LQCL+ T PLT YFL+ + E + +
Sbjct: 2 MHIQPGLCGLGNLGNTXFMNSALQCLSNTAPLTDYFLKDEYEAEINRDNPLGMKGEIAEA 61
Query: 634 LENLILRAKDGK-SPLSPIGILSRLQSIGSQLGNGREEDAHEFLRYAIDTMQ-------- 684
LI + G+ + ++P +++ Q +++D+ E L + +D +
Sbjct: 62 YAELIKQMWSGRDAHVAPRMFKTQVGRFAPQFSGYQQQDSQELLAFLLDGLHEDLNRVKK 121
Query: 685 --------------SVCIEEAGVNASGPLEDETTLIGLTFGGYLRSKIKCTKCHGKSERQ 730
+V +EA N L +++ ++ TF G +S + C +C S
Sbjct: 122 KPYLELKDANGRPDAVVAKEAWENHR--LRNDSVIVD-TFHGLFKSTLVCPECAKVSVTF 178
Query: 731 ERMMDLTVEI--------EGDIGN----------LEEALRRYTGTEILDGENKYKCDRCK 772
+ LT+ + EG + L + + +T E L + + C CK
Sbjct: 179 DPFCYLTLPLPLKKDRVMEGPMLQPQKKKKTTVALRDCIELFTTMETLGEHDPWYCPNCK 238
Query: 773 SYEKAKKKLTIVEAPNILTIALKRFQSGKF--GKLNKSIQFP-EILDLAPYMSGTSDKLP 829
+++A KK + P IL + LKRF ++ KL+ ++FP L+++ ++ S +
Sbjct: 239 KHQQATKKFDLWSLPKILVVHLKRFSYNRYWRDKLDTVVEFPIRGLNMSEFVCNLSARPY 298
Query: 830 IYRLYGVVVHLDIMNAAFSGHYVCYVKSTQN-KWFKVDDSTVTAVERERVLTEGAYMLLY 888
+Y L V H M GHY Y K+ N KW+ DDS V+ ++++T+ AY+L Y
Sbjct: 299 VYDLIAVSNHYGAMGV---GHYTAYAKNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFY 355
Query: 889 AR 890
R
Sbjct: 356 QR 357
>pdb|2GFO|A Chain A, Structure Of The Catalytic Domain Of Human Ubiquitin
Carboxyl-terminal Hydrolase 8
Length = 396
Score = 110 bits (276), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 91/335 (27%), Positives = 146/335 (43%), Gaps = 37/335 (11%)
Query: 587 GLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKECAKKDWCF----TCELENLILRA- 641
GL N GN+CY N +LQCL P L YF + + + + + E +I +A
Sbjct: 64 GLRNLGNTCYXNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEFGIIXKAL 123
Query: 642 -KDGKSPLSPIGILSRLQSIGSQLGNGREEDAHEFLRYAIDTMQ---------------- 684
+SP + I Q ++D+ E L + D +
Sbjct: 124 WTGQYRYISPKDFKITIGKINDQFAGYSQQDSQELLLFLXDGLHEDLNKADNRKRYKEEN 183
Query: 685 -----SVCIEEAGVNASGPLEDETTLIGLTFGGYLRSKIKCTKCHGKSERQERMMDLTVE 739
E L +E+ ++ L F G +S ++C CH KS E L++
Sbjct: 184 NDHLDDFKAAEHAWQKHKQL-NESIIVAL-FQGQFKSTVQCLTCHKKSRTFEAFXYLSLP 241
Query: 740 IEGDIG-NLEEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLTIVEAPNILTIALKRFQ 798
+ L++ LR ++ E L N++ C C++ + KK+ I + P +L + LKRF
Sbjct: 242 LASTSKCTLQDCLRLFSKEEKLTDNNRFYCSHCRARRDSLKKIEIWKLPPVLLVHLKRFS 301
Query: 799 -SGKFG-KLNKSIQFP-EILDLAPYMSGTSDKLPIYRLYGVVVHLDIMNAAFSGHYVCYV 855
G++ KL S+ FP E LDL+ Y+ G + L Y L+ V H ++ GHY Y
Sbjct: 302 YDGRWKQKLQTSVDFPLENLDLSQYVIGPKNNLKKYNLFSVSNHYGGLDG---GHYTAYC 358
Query: 856 K-STQNKWFKVDDSTVTAVERERVLTEGAYMLLYA 889
K + + +WFK DD V+ + V + AY+L Y
Sbjct: 359 KNAARQRWFKFDDHEVSDISVSSVKSSAAYILFYT 393
>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 = 103 bits (257), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 96/350 (27%), Positives = 149/350 (42%), Gaps = 55/350 (15%)
Query: 587 GLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKEC--AKKDWCFTCELENLI--LRAK 642
GL N GN+C+ N VLQCL+ T PL + L+ +E + T ++I L
Sbjct: 5 GLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQELTEAFADVIGALWHP 64
Query: 643 DGKSPLSPIGILSRLQSIGSQLGNGREEDAHEFLRYAIDTMQSVCIEEAG-----VNASG 697
D ++P + Q ++DA EFL+ ++ + + I G + A+G
Sbjct: 65 DSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLLMERLH-LEINRRGRRAPPILANG 123
Query: 698 P------------------------------LEDETTLIGLTFGGYLRSKIKCTKCHGKS 727
P LE E + I F G L+S +KC C +S
Sbjct: 124 PVPSPPRRGGALLEEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQACGYRS 183
Query: 728 ERQERMMDLTVEI-----EGDIGNLEEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLT 782
E DL++ I G +L + +T E L+ EN CDRC+ ++ KKLT
Sbjct: 184 TTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELESENAPVCDRCRQKTRSTKKLT 243
Query: 783 IVEAPNILTIALKRFQSGKFGKLNKS---IQFP-EILDLAPYMSGTSDKLPIYRLYGVVV 838
+ P IL + L RF + + G + KS + FP + L L + S + P+Y+LY +
Sbjct: 244 VQRFPRILVLHLNRFSASR-GSIKKSSVGVDFPLQRLSLGDFASDKAGS-PVYQLYALCN 301
Query: 839 HLDIMNAAFSGHYVCYVKSTQNKWFKVDDSTVTAVERERVLTEGAYMLLY 888
H + GHY + Q W +DS V+ V +V + Y+L Y
Sbjct: 302 H---SGSVHYGHYTALCR-CQTGWHVYNDSRVSPVSENQVASSEGYVLFY 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 = 103 bits (257), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 96/350 (27%), Positives = 149/350 (42%), Gaps = 55/350 (15%)
Query: 587 GLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKEC--AKKDWCFTCELENLI--LRAK 642
GL N GN+C+ N VLQCL+ T PL + L+ +E + T ++I L
Sbjct: 18 GLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQELTEAFADVIGALWHP 77
Query: 643 DGKSPLSPIGILSRLQSIGSQLGNGREEDAHEFLRYAIDTMQSVCIEEAG-----VNASG 697
D ++P + Q ++DA EFL+ ++ + + I G + A+G
Sbjct: 78 DSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLLMERLH-LEINRRGRRAPPILANG 136
Query: 698 P------------------------------LEDETTLIGLTFGGYLRSKIKCTKCHGKS 727
P LE E + I F G L+S +KC C +S
Sbjct: 137 PVPSPPRRGGALLEEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQACGYRS 196
Query: 728 ERQERMMDLTVEI-----EGDIGNLEEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLT 782
E DL++ I G +L + +T E L+ EN CDRC+ ++ KKLT
Sbjct: 197 TTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELESENAPVCDRCRQKTRSTKKLT 256
Query: 783 IVEAPNILTIALKRFQSGKFGKLNKS---IQFP-EILDLAPYMSGTSDKLPIYRLYGVVV 838
+ P IL + L RF + + G + KS + FP + L L + S + P+Y+LY +
Sbjct: 257 VQRFPRILVLHLNRFSASR-GSIKKSSVGVDFPLQRLSLGDFASDKAGS-PVYQLYALCN 314
Query: 839 HLDIMNAAFSGHYVCYVKSTQNKWFKVDDSTVTAVERERVLTEGAYMLLY 888
H + GHY + Q W +DS V+ V +V + Y+L Y
Sbjct: 315 H---SGSVHYGHYTALCR-CQTGWHVYNDSRVSPVSENQVASSEGYVLFY 360
>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 = 103 bits (257), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 96/350 (27%), Positives = 149/350 (42%), Gaps = 55/350 (15%)
Query: 587 GLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKEC--AKKDWCFTCELENLI--LRAK 642
GL N GN+C+ N VLQCL+ T PL + L+ +E + T ++I L
Sbjct: 24 GLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQELTEAFADVIGALWHP 83
Query: 643 DGKSPLSPIGILSRLQSIGSQLGNGREEDAHEFLRYAIDTMQSVCIEEAG-----VNASG 697
D ++P + Q ++DA EFL+ ++ + + I G + A+G
Sbjct: 84 DSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLLMERLH-LEINRRGRRAPPILANG 142
Query: 698 P------------------------------LEDETTLIGLTFGGYLRSKIKCTKCHGKS 727
P LE E + I F G L+S +KC C +S
Sbjct: 143 PVPSPPRRGGALLEEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQACGYRS 202
Query: 728 ERQERMMDLTVEI-----EGDIGNLEEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLT 782
E DL++ I G +L + +T E L+ EN CDRC+ ++ KKLT
Sbjct: 203 TTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELESENAPVCDRCRQKTRSTKKLT 262
Query: 783 IVEAPNILTIALKRFQSGKFGKLNKS---IQFP-EILDLAPYMSGTSDKLPIYRLYGVVV 838
+ P IL + L RF + + G + KS + FP + L L + S + P+Y+LY +
Sbjct: 263 VQRFPRILVLHLNRFSASR-GSIKKSSVGVDFPLQRLSLGDFASDKAGS-PVYQLYALCN 320
Query: 839 HLDIMNAAFSGHYVCYVKSTQNKWFKVDDSTVTAVERERVLTEGAYMLLY 888
H + GHY + Q W +DS V+ V +V + Y+L Y
Sbjct: 321 H---SGSVHYGHYTALCR-CQTGWHVYNDSRVSPVSENQVASSEGYVLFY 366
>pdb|2F1Z|A Chain A, Crystal Structure Of Hausp
pdb|2F1Z|B Chain B, Crystal Structure Of Hausp
Length = 522
Score = 102 bits (255), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 101/380 (26%), Positives = 160/380 (42%), Gaps = 60/380 (15%)
Query: 561 YSDKGLFSYELFVKL-----YNWN-KVELQPCGLINCGNSCYANVVLQCLAFTPPL-TAY 613
+ D ++E+FV+ W+ K GL N G +CY N +LQ L FT L A
Sbjct: 145 FIDDDKVTFEVFVQADAPHGVAWDSKKHTGYVGLKNQGATCYMNSLLQTLFFTNQLRKAV 204
Query: 614 FLQGLHSKECAKKDWCFTCELENLILRAKDGKSPLSPIGILSRLQSIGSQ-LGNGREEDA 672
++ + +K L+ + + P +G +S G + L + + D
Sbjct: 205 YMMPTEGDDSSK---SVPLALQRVFYELQHSDKP---VGTKKLTKSFGWETLDSFMQHDV 258
Query: 673 HEFLRYAIDT----MQSVCIEEAGVNASGPLEDETTLIGLTFGGYLRSKIKCTKCHGKSE 728
E R +D M+ C+E I F G + S I+C + +S+
Sbjct: 259 QELCRVLLDNVENKMKGTCVEGT--------------IPKLFRGKMVSYIQCKEVDYRSD 304
Query: 729 RQERMMDLTVEIEGDIGNLEEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLTIVEAPN 788
R+E D+ + I+G N+ E+ Y E LDG+NKY ++A+K + + P
Sbjct: 305 RREDYYDIQLSIKGK-KNIFESFVDYVAVEQLDGDNKYDAGE-HGLQEAEKGVKFLTLPP 362
Query: 789 ILTIALKRF----QSGKFGKLNKSIQFPEILDLAPYMSGTSDKLPI-YRLYGVVVHLDIM 843
+L + L RF Q+ + K+N +FPE L L ++ T K P Y L+ V+VH
Sbjct: 363 VLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDEFLQKTDPKDPANYILHAVLVH---S 419
Query: 844 NAAFSGHYVCYVKSTQN-KWFKVDDSTVTAVERERVLTE---------------GAYMLL 887
GHYV Y+ + KW K DD V+ +E + AYML+
Sbjct: 420 GDNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLV 479
Query: 888 YARCSPRAPRLIRNSIISHD 907
Y R S + L ++ HD
Sbjct: 480 YIRESKLSEVL--QAVTDHD 497
>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 = 99.4 bits (246), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 95/349 (27%), Positives = 148/349 (42%), Gaps = 54/349 (15%)
Query: 586 CGLINCGNSCYANVVLQCLAFTPPL-TAYFLQGLHSKECAKKDWCFTCELENLILRAKDG 644
GL N G +CY N +LQ L FT L A ++ + +K L+ + +
Sbjct: 7 VGLKNQGATCYMNSLLQTLFFTNQLRKAVYMMPTEGDDSSK---SVPLALQRVFYELQHS 63
Query: 645 KSPLSPIGILSRLQSIGSQ-LGNGREEDAHEFLRYAIDT----MQSVCIEEAGVNASGPL 699
P +G +S G + L + + D E R +D M+ C+E
Sbjct: 64 DKP---VGTKKLTKSFGWETLDSFMQHDVQELCRVLLDNVENKMKGTCVEGT-------- 112
Query: 700 EDETTLIGLTFGGYLRSKIKCTKCHGKSERQERMMDLTVEIEGDIGNLEEALRRYTGTEI 759
I F G + S I+C + +S+R+E D+ + I+G N+ E+ Y E
Sbjct: 113 ------IPKLFRGKMVSYIQCKEVDYRSDRREDYYDIQLSIKGK-KNIFESFVDYVAVEQ 165
Query: 760 LDGENKYKCDRCKSYEKAKKKLTIVEAPNILTIALKRF----QSGKFGKLNKSIQFPEIL 815
LDG+NKY ++A+K + + P +L + L RF Q+ + K+N +FPE L
Sbjct: 166 LDGDNKYDAGE-HGLQEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQL 224
Query: 816 DLAPYMSGTSDKLPI-YRLYGVVVHLDIMNAAFSGHYVCYVKSTQN-KWFKVDDSTVTAV 873
L ++ T K P Y L+ V+VH GHYV Y+ + KW K DD V+
Sbjct: 225 PLDEFLQKTDPKDPANYILHAVLVH---SGDNHGGHYVVYLNPKGDGKWCKFDDDVVSRC 281
Query: 874 ERERVLTE---------------GAYMLLYARCSPRAPRLIRNSIISHD 907
+E + AYML+Y R S + L ++ HD
Sbjct: 282 TKEEAIEHNYGGHDDDLSVRHCTNAYMLVYIRESKLSEVL--QAVTDHD 328
>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 = 91.3 bits (225), Expect = 3e-18, Method: Composition-based stats.
Identities = 92/343 (26%), Positives = 143/343 (41%), Gaps = 44/343 (12%)
Query: 587 GLINCGNSCYANVVLQCLAFTPPLTAYFLQGLHSKECAKKDWCFTCELENLILRAKDGKS 646
GL N G +CY N +LQ L FT L + + K + L+ D
Sbjct: 8 GLKNQGATCYXNSLLQTLFFTNQLRKAVYXXPTEGDDSSKSVPLALQRVFYELQHSD--- 64
Query: 647 PLSPIGILSRLQSIG-SQLGNGREEDAHEFLRYAIDTMQSVCIEEAGVNASGPLEDETTL 705
P+G +S G L + + D E R +D +++ + G G +
Sbjct: 65 --KPVGTKKLTKSFGWETLDSFXQHDVQELCRVLLDNVEN---KXKGTCVEGTIPK---- 115
Query: 706 IGLTFGGYLRSKIKCTKCHGKSERQERMMDLTVEIEGDIGNLEEALRRYTGTEILDGENK 765
F G S I+C + +S+R+E D+ + I+G N+ E+ Y E LDG+NK
Sbjct: 116 ---LFRGKXVSYIQCKEVDYRSDRREDYYDIQLSIKGK-KNIFESFVDYVAVEQLDGDNK 171
Query: 766 YKCDRCKSYEKAKKKLTIVEAPNILTIALKRF----QSGKFGKLNKSIQFPEILDLAPYM 821
Y ++A+K + + P +L + L RF Q+ + K+N +FPE L L ++
Sbjct: 172 YDAGE-HGLQEAEKGVKFLTLPPVLHLQLXRFXYDPQTDQNIKINDRFEFPEQLPLDEFL 230
Query: 822 SGTSDKLPI-YRLYGVVVHLDIMNAAFSGHYVCYVKSTQN-KWFKVDDSTVTAVERERVL 879
T K P Y L+ V+VH GHYV Y+ + KW K DD V+ +E +
Sbjct: 231 QKTDPKDPANYILHAVLVH---SGDNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAI 287
Query: 880 TE---------------GAYMLLYARCSPRAPRLIRNSIISHD 907
AY L+Y R S + L ++ HD
Sbjct: 288 EHNYGGHDDDLSVRHCTNAYXLVYIRESKLSEVL--QAVTDHD 328
>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 = 68.6 bits (166), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 94/385 (24%), Positives = 147/385 (38%), Gaps = 89/385 (23%)
Query: 585 PCGLINCGNSCYANVVLQCLAFTP----PLTAYFLQGLHSKECAKKDWCFTCELENLILR 640
PCGL N GN+CY N +QC+ P L Y S E A + T L +L
Sbjct: 14 PCGLTNLGNTCYMNATVQCIRSVPELKDALKRYAGALRASGEMASAQY-ITAALRDLFDS 72
Query: 641 AKDGKSPLSPIGILSRLQSIGSQL------GNGREEDAHE-------FLRYAIDTMQSVC 687
S + PI +L L Q G ++DA+E L+ ++ ++
Sbjct: 73 MDKTSSSIPPIILLQFLHMAFPQFAEKGEQGQYLQQDANECWIQMMRVLQQKLEAIEDDS 132
Query: 688 IEEAGVNASGPL--EDETTLIGLTFGGYLRSKIKCTKCHGK--SERQERMMDLTVEIEGD 743
++E +++ + +LI FG + +KCT+ + ++ +E + L+ I +
Sbjct: 133 VKETDSSSASAATPSKKKSLIDQFFGVEFETTMKCTESEEEEVTKGKENQLQLSCFINQE 192
Query: 744 IGNLEEALRRYTGTEILDGENKYKCDRCKSYEKAKKKLTIVEAPNILTIALKRF----QS 799
+ L L+ EI + R Y K+ K I P LTI + RF +
Sbjct: 193 VKYLFTGLKLRLQEEI--TKQSPTLQRNALYIKSSK---ISRLPAYLTIQMVRFFYKEKE 247
Query: 800 GKFGKLNKSIQFPEILDL----APYMS----------------------GTSDKLP---- 829
K+ K ++FP +LD+ P + TSDK
Sbjct: 248 SVNAKVLKDVKFPLMLDMYELCTPELQEKMVSFRSKFKDLEDKKVNQQPNTSDKKSSPQK 307
Query: 830 -------------------IYRLYGVVVHLDIMNAAFSGHYVCYVKSTQNKWFKVDDSTV 870
Y L V+ H ++ SGHYV +VK Q++W K DD V
Sbjct: 308 EVKYEPFSFADDIGSNNCGYYDLQAVLTHQG--RSSSSGHYVSWVKRKQDEWIKFDDDKV 365
Query: 871 TAVERERVLTEG-------AYMLLY 888
+ V E +L AY+LLY
Sbjct: 366 SIVTPEDILRLSGGGDWHIAYVLLY 390
>pdb|2DAN|A Chain A, The Solution Structure Of The Mynd Domain (Leu384-Cys430)
Of Human Zinc Finger Mynd Domain Containing Protein 10
Length = 60
Score = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 69 VPQHPQCAVCFSPTTTRCARCKAVRYCSGKCQIVHWRQGHKDECQPPS 116
P+ P+CA C + + RC+RC+ YC +CQ+ HW + H C PS
Sbjct: 12 APERPRCAYCSAEASKRCSRCQNEWYCCRECQVKHWEK-HGKTCSGPS 58
>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 = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 31/51 (60%), Gaps = 4/51 (7%)
Query: 830 IYRLYGVVVHLDIMNAAFSGHYVCYVKST--QNKWFKVDDSTVTAVERERV 878
+Y L GV+ H + SGHY +++ +NKW+K +D V+ VE+E++
Sbjct: 345 VYNLIGVITHQGANSE--SGHYQAFIRDELDENKWYKFNDDKVSVVEKEKI 393
>pdb|2D8Q|A Chain A, Solution Structure Of The Mynd Domain Of The Human Zinc
Finger Mynd Domain-Containing Protein 10
Length = 70
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 24/38 (63%)
Query: 69 VPQHPQCAVCFSPTTTRCARCKAVRYCSGKCQIVHWRQ 106
P+ P+CA C + + RC+RC+ YC +CQ+ HW +
Sbjct: 12 APERPRCAYCSAEASKRCSRCQNEWYCCRECQVKHWEK 49
>pdb|3RIB|A Chain A, Human Lysine Methyltransferase Smyd2 In Complex With
Adohcy
pdb|3RIB|B Chain B, Human Lysine Methyltransferase Smyd2 In Complex With
Adohcy
Length = 441
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 61 YGYSTTVYVPQHPQCAVCFSPT--TTRCARCKAVRYCSGKCQIVHWRQGHKDECQP 114
Y Y TV + C CF+ ++C RCK YC+ +CQ W HK EC P
Sbjct: 39 YAYVLTVN-ERGNHCEYCFTRKEGLSKCGRCKQAFYCNVECQKEDWPM-HKLECSP 92
>pdb|3S7B|A Chain A, Structural Basis Of Substrate Methylation And Inhibition
Of Smyd2
pdb|3S7D|A Chain A, Structural Basis Of Substrate Methylation And Inhibition
Of Smyd2
pdb|3S7F|A Chain A, Structural Basis Of Substrate Methylation And Inhibition
Of Smyd2
pdb|3S7J|A Chain A, Structural Basis Of Substrate Methylation And Inhibition
Of Smyd2
Length = 433
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 61 YGYSTTVYVPQHPQCAVCFSPT--TTRCARCKAVRYCSGKCQIVHWRQGHKDECQP 114
Y Y TV + C CF+ ++C RCK YC+ +CQ W HK EC P
Sbjct: 39 YAYVLTVN-ERGNHCEYCFTRKEGLSKCGRCKQAFYCNVECQKEDWPM-HKLECSP 92
>pdb|3TG4|A Chain A, Structure Of Smyd2 In Complex With Sam
pdb|3TG5|A Chain A, Structure Of Smyd2 In Complex With P53 And Sah
Length = 433
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 61 YGYSTTVYVPQHPQCAVCFSPT--TTRCARCKAVRYCSGKCQIVHWRQGHKDECQP 114
Y Y TV + C CF+ ++C RCK YC+ +CQ W HK EC P
Sbjct: 39 YAYVLTVN-ERGNHCEYCFTRKEGLSKCGRCKQAFYCNVECQKEDWPM-HKLECSP 92
>pdb|3RU0|A Chain A, Cocrystal Structure Of Human Smyd3 With Inhibitor
Sinefungin Bound
pdb|3RU0|B Chain B, Cocrystal Structure Of Human Smyd3 With Inhibitor
Sinefungin Bound
Length = 438
Score = 35.0 bits (79), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 85 RCARCKAVRYCSGKCQIVHWRQGHKDECQ 113
RC++C+ +YCS KCQ W HK EC+
Sbjct: 63 RCSQCRVAKYCSAKCQKKAW-PDHKRECK 90
>pdb|3OXG|A Chain A, Human Lysine Methyltransferase Smyd3 In Complex With
Adohcy (Form Iii)
Length = 464
Score = 35.0 bits (79), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 85 RCARCKAVRYCSGKCQIVHWRQGHKDECQ 113
RC++C+ +YCS KCQ W HK EC+
Sbjct: 97 RCSQCRVAKYCSAKCQKKAW-PDHKRECK 124
>pdb|3OXF|A Chain A, Human Lysine Methyltransferase Smyd3 In Complex With
Adohcy (Form I)
pdb|3OXF|B Chain B, Human Lysine Methyltransferase Smyd3 In Complex With
Adohcy (Form I)
Length = 436
Score = 35.0 bits (79), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 85 RCARCKAVRYCSGKCQIVHWRQGHKDECQ 113
RC++C+ +YCS KCQ W HK EC+
Sbjct: 61 RCSQCRVAKYCSAKCQKKAW-PDHKRECK 88
>pdb|3PDN|A Chain A, Crystal Structure Of Smyd3 In Complex With
Methyltransferase Inhibitor Sinefungin
pdb|3OXL|A Chain A, Human Lysine Methyltransferase Smyd3 In Complex With
Adohcy (Form Ii)
Length = 428
Score = 35.0 bits (79), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 85 RCARCKAVRYCSGKCQIVHWRQGHKDECQ 113
RC++C+ +YCS KCQ W HK EC+
Sbjct: 61 RCSQCRVAKYCSAKCQKKAW-PDHKRECK 88
>pdb|3QWP|A Chain A, Crystal Structure Of Set And Mynd Domain Containing 3;
Zinc Finger Mynd Domain-Containing Protein 1
Length = 429
Score = 35.0 bits (79), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 85 RCARCKAVRYCSGKCQIVHWRQGHKDECQ 113
RC++C+ +YCS KCQ W HK EC+
Sbjct: 62 RCSQCRVAKYCSAKCQKKAW-PDHKRECK 89
>pdb|3MEK|A Chain A, Crystal Structure Of Human Histone-Lysine N-
Methyltransferase Smyd3 In Complex With S-Adenosyl-L-
Methionine
Length = 429
Score = 34.7 bits (78), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 85 RCARCKAVRYCSGKCQIVHWRQGHKDECQ 113
RC++C+ +YCS KCQ W HK EC+
Sbjct: 62 RCSQCRVAKYCSAKCQKKAW-PDHKRECK 89
>pdb|3IHP|A Chain A, Covalent Ubiquitin-Usp5 Complex
pdb|3IHP|B Chain B, Covalent Ubiquitin-Usp5 Complex
Length = 854
Score = 34.3 bits (77), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 31/62 (50%), Gaps = 5/62 (8%)
Query: 831 YRLYGVVVHLDIMNAAFSGHYVCYVKSTQNKWFKVDDSTVTAVERERVLTEGAYMLLYAR 890
Y+L+ + H+ + GHYVC++K + +W +D V A E+ + Y+ Y R
Sbjct: 797 YQLFAFISHMG--TSTMCGHYVCHIKK-EGRWVIYNDQKVCASEKPP--KDLGYIYFYQR 851
Query: 891 CS 892
+
Sbjct: 852 VA 853
>pdb|3N71|A Chain A, Crystal Structure Of Cardiac Specific Histone
Methyltransferase Smyd1
Length = 490
Score = 33.1 bits (74), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 18/40 (45%), Gaps = 3/40 (7%)
Query: 75 CAVCF--SPTTTRCARCKAVRYCSGKCQIVHWRQGHKDEC 112
C CF RC +CK YC CQ W HK+EC
Sbjct: 52 CHTCFKRQEKLHRCGQCKFAHYCDRTCQKDAWL-NHKNEC 90
>pdb|1OD0|A Chain A, Family 1 B-Glucosidase From Thermotoga Maritima
pdb|1OD0|B Chain B, Family 1 B-Glucosidase From Thermotoga Maritima
pdb|1OIF|A Chain A, Family 1 B-glucosidase From Thermotoga Maritima
pdb|1OIF|B Chain B, Family 1 B-glucosidase From Thermotoga Maritima
pdb|1OIM|A Chain A, Family 1 B-Glucosidase From Thermotoga Maritima
pdb|1OIM|B Chain B, Family 1 B-Glucosidase From Thermotoga Maritima
pdb|1OIN|A Chain A, Family 1 B-Glucosidase From Thermotoga Maritima
pdb|1OIN|B Chain B, Family 1 B-Glucosidase From Thermotoga Maritima
pdb|1W3J|A Chain A, Family 1 B-Glucosidase From Thermotoga Maritima In Complex
With Tetrahydrooxazine
pdb|1W3J|B Chain B, Family 1 B-Glucosidase From Thermotoga Maritima In Complex
With Tetrahydrooxazine
pdb|1UZ1|A Chain A, Family 1 B-Glucosidase From Thermotoga Maritima In Complex
With Isofagomine Lactam
pdb|1UZ1|B Chain B, Family 1 B-Glucosidase From Thermotoga Maritima In Complex
With Isofagomine Lactam
pdb|2CBU|A Chain A, Beta-Glucosidase From Thermotoga Maritima In Complex With
Castanospermine
pdb|2CBU|B Chain B, Beta-Glucosidase From Thermotoga Maritima In Complex With
Castanospermine
pdb|2CBV|A Chain A, Beta-Glucosidase From Thermotoga Maritima In Complex With
Calystegine B2
pdb|2CBV|B Chain B, Beta-Glucosidase From Thermotoga Maritima In Complex With
Calystegine B2
pdb|2CES|A Chain A, Beta-Glucosidase From Thermotoga Maritima In Complex With
Glucoimidazole
pdb|2CES|B Chain B, Beta-Glucosidase From Thermotoga Maritima In Complex With
Glucoimidazole
pdb|2CET|A Chain A, Beta-Glucosidase From Thermotoga Maritima In Complex With
Phenethyl-Substituted Glucoimidazole
pdb|2CET|B Chain B, Beta-Glucosidase From Thermotoga Maritima In Complex With
Phenethyl-Substituted Glucoimidazole
pdb|2J77|A Chain A, Beta-Glucosidase From Thermotoga Maritima In Complex With
Deoxynojirimycin
pdb|2J77|B Chain B, Beta-Glucosidase From Thermotoga Maritima In Complex With
Deoxynojirimycin
pdb|2J78|A Chain A, Beta-Glucosidase From Thermotoga Maritima In Complex With
Gluco-Hydroximolactam
pdb|2J78|B Chain B, Beta-Glucosidase From Thermotoga Maritima In Complex With
Gluco-Hydroximolactam
pdb|2J79|A Chain A, Beta-Glucosidase From Thermotoga Maritima In Complex With
Galacto-Hydroximolactam
pdb|2J79|B Chain B, Beta-Glucosidase From Thermotoga Maritima In Complex With
Galacto-Hydroximolactam
pdb|2J7B|A Chain A, Beta-Glucosidase From Thermotoga Maritima In Complex With
Gluco-Tetrazole
pdb|2J7B|B Chain B, Beta-Glucosidase From Thermotoga Maritima In Complex With
Gluco-Tetrazole
pdb|2J7C|A Chain A, Beta-Glucosidase From Thermotoga Maritima In Complex With
Phenylaminomethyl-Derived Glucoimidazole
pdb|2J7C|B Chain B, Beta-Glucosidase From Thermotoga Maritima In Complex With
Phenylaminomethyl-Derived Glucoimidazole
pdb|2J7D|A Chain A, Beta-glucosidase From Thermotoga Maritima In Complex With
Methoxycarbonyl-substituted Glucoimidazole
pdb|2J7D|B Chain B, Beta-glucosidase From Thermotoga Maritima In Complex With
Methoxycarbonyl-substituted Glucoimidazole
pdb|2J7E|A Chain A, Beta-Glucosidase From Thermotoga Maritima In Complex With
Methyl Acetate-Substituted Glucoimidazole
pdb|2J7E|B Chain B, Beta-Glucosidase From Thermotoga Maritima In Complex With
Methyl Acetate-Substituted Glucoimidazole
pdb|2J7F|A Chain A, Beta-glucosidase From Thermotoga Maritima In Complex With
Carboxylate-substituted Glucoimidazole
pdb|2J7F|B Chain B, Beta-glucosidase From Thermotoga Maritima In Complex With
Carboxylate-substituted Glucoimidazole
pdb|2J7G|A Chain A, Beta-glucosidase From Thermotoga Maritima In Complex With
Methyl Acetic Acid-substituted Glucoimidazole
pdb|2J7G|B Chain B, Beta-glucosidase From Thermotoga Maritima In Complex With
Methyl Acetic Acid-substituted Glucoimidazole
pdb|2J7H|A Chain A, Beta-glucosidase From Thermotoga Maritima In Complex With
Azafagomine
pdb|2J7H|B Chain B, Beta-glucosidase From Thermotoga Maritima In Complex With
Azafagomine
pdb|2J75|A Chain A, Beta-glucosidase From Thermotoga Maritima In Complex With
Noeuromycin
pdb|2J75|B Chain B, Beta-glucosidase From Thermotoga Maritima In Complex With
Noeuromycin
pdb|2JAL|A Chain A, Beta-Glucosidase From Thermotoga Maritima In Complex With
Cyclophellitol
pdb|2JAL|B Chain B, Beta-Glucosidase From Thermotoga Maritima In Complex With
Cyclophellitol
pdb|2VRJ|A Chain A, Beta-Glucosidase From Thermotoga Maritima In Complex With
N- Octyl-5-Deoxy-6-Oxa-N-(Thio)carbamoylcalystegine
pdb|2VRJ|B Chain B, Beta-Glucosidase From Thermotoga Maritima In Complex With
N- Octyl-5-Deoxy-6-Oxa-N-(Thio)carbamoylcalystegine
pdb|2WBG|A Chain A, Structure Of Family 1 Beta-Glucosidase From Thermotoga
Maritima In Complex With
3-Imino-2-Oxa-(+)-Castanospermine
pdb|2WBG|B Chain B, Structure Of Family 1 Beta-Glucosidase From Thermotoga
Maritima In Complex With
3-Imino-2-Oxa-(+)-Castanospermine
pdb|2WBG|C Chain C, Structure Of Family 1 Beta-Glucosidase From Thermotoga
Maritima In Complex With
3-Imino-2-Oxa-(+)-Castanospermine
pdb|2WBG|D Chain D, Structure Of Family 1 Beta-Glucosidase From Thermotoga
Maritima In Complex With
3-Imino-2-Oxa-(+)-Castanospermine
pdb|2WC3|A Chain A, Structure Of Family 1 Beta-Glucosidase From Thermotoga
Maritima In Complex With 3-Imino-2-Oxa-(+)-8-Epi-
Castanospermine
pdb|2WC3|B Chain B, Structure Of Family 1 Beta-Glucosidase From Thermotoga
Maritima In Complex With 3-Imino-2-Oxa-(+)-8-Epi-
Castanospermine
pdb|2WC3|C Chain C, Structure Of Family 1 Beta-Glucosidase From Thermotoga
Maritima In Complex With 3-Imino-2-Oxa-(+)-8-Epi-
Castanospermine
pdb|2WC3|D Chain D, Structure Of Family 1 Beta-Glucosidase From Thermotoga
Maritima In Complex With 3-Imino-2-Oxa-(+)-8-Epi-
Castanospermine
pdb|2WC4|A Chain A, Structure Of Family 1 Beta-Glucosidase From Thermotoga
Maritima In Complex With 3-Imino-2-Thia-(+)-
Castanospermine
pdb|2WC4|B Chain B, Structure Of Family 1 Beta-Glucosidase From Thermotoga
Maritima In Complex With 3-Imino-2-Thia-(+)-
Castanospermine
pdb|2WC4|C Chain C, Structure Of Family 1 Beta-Glucosidase From Thermotoga
Maritima In Complex With 3-Imino-2-Thia-(+)-
Castanospermine
pdb|2WC4|D Chain D, Structure Of Family 1 Beta-Glucosidase From Thermotoga
Maritima In Complex With 3-Imino-2-Thia-(+)-
Castanospermine
Length = 468
Score = 31.6 bits (70), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 26/108 (24%), Positives = 45/108 (41%), Gaps = 9/108 (8%)
Query: 513 SAMSAQIENSPSNVGNGLKTSLWKAVDQFRGSKSSKQCLSVGCETAGRYSDKGLFSYELF 572
+ S QIE SP + +G S+W G+ + V C+ R+ + +L
Sbjct: 37 ATASYQIEGSP--LADGAGMSIWHTFSHTPGNVKNGDTGDVACDHYNRWKEDIEIIEKLG 94
Query: 573 VKLY----NWNKVELQPCGLINCGNSCYANVVLQCL---AFTPPLTAY 613
VK Y +W ++ + G +N + N ++ L TP +T Y
Sbjct: 95 VKAYRFSISWPRILPEGTGRVNQKGLDFYNRIIDTLLEKGITPFVTIY 142
>pdb|3QWV|A Chain A, Crystal Structure Of Histone Lysine Methyltransferase
Smyd2 In Complex With The Cofactor Product Adohcy
pdb|3QWW|A Chain A, Crystal Structure Of Histone Lysine Methyltransferase
Smyd2 In Complex With The Methyltransferase Inhibitor
Sinefungin
Length = 433
Score = 31.2 bits (69), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 20/41 (48%), Gaps = 3/41 (7%)
Query: 74 QCAVCFSPT--TTRCARCKAVRYCSGKCQIVHWRQGHKDEC 112
C CF+ ++C RCK YC +CQ W HK EC
Sbjct: 51 HCECCFARKEGLSKCGRCKQAFYCDVECQKEDW-PLHKLEC 90
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 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,428,470
Number of Sequences: 62578
Number of extensions: 1044195
Number of successful extensions: 1941
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1853
Number of HSP's gapped (non-prelim): 52
length of query: 1145
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1036
effective length of database: 8,152,335
effective search space: 8445819060
effective search space used: 8445819060
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: 57 (26.6 bits)