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= 001479
(1071 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 = 129 bits (323), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 160/333 (48%), Gaps = 35/333 (10%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGK--DWCLMCELEQHVMML--- 589
GL+N GN+C+ +++LQCL + + + + HS+ C + D C C L++ V L
Sbjct: 143 GLINMGNTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGA 202
Query: 590 ----RESAGPLSPGRILSHMRSISC------QIGDGSQEDAHEFLRLLVASM-QSICLER 638
+ S+ S R + ++C + SQ+DAHEF + ++ + QS L+
Sbjct: 203 LNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQSYVLDL 262
Query: 639 HGGESKVDPRLQETTFIQHT-FGGRLWSKVKCLRCSHESER-YENIMDLTLEIYGWVESL 696
+ ++ I HT F G L S + C C + S+ + +DL+L+I + L
Sbjct: 263 PNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIKD-KKKL 321
Query: 697 EDALTQFTSPEDLDGENMYKCARCATYVRARKQLSIHEAPNILTIVLKRFQE---GRYGK 753
+ L F E L N Y C C + A KQL IH+ P++L + LKRF+ G K
Sbjct: 322 YECLDSFHKKEQLKDFN-YHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRK 380
Query: 754 INKCITFPEMLDMMPFMTG--------TGDTPPL-YMLYSVVVHLDTQNASFSGHYVSYI 804
++ I FP L+M + + G P + Y L +V H T N GHY+++
Sbjct: 381 LDDFIEFPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVN---EGHYIAFC 437
Query: 805 KDMQGTWFRIDDTQVHPVPMSQVMSEGAYMLFY 837
K G WF+ +D+ V + +V+ E AY+LFY
Sbjct: 438 KISGGQWFKFNDSMVSSISQEEVLKEQAYLLFY 470
>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 = 126 bits (317), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 98/333 (29%), Positives = 160/333 (48%), Gaps = 35/333 (10%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGK--DWCLMCELEQHVMML--- 589
GL+N G++C+ +++LQCL + + + + HS+ C + D C C L++ V L
Sbjct: 143 GLINMGSTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGA 202
Query: 590 ----RESAGPLSPGRILSHMRSISC------QIGDGSQEDAHEFLRLLVASM-QSICLER 638
+ S+ S R + ++C + SQ+DAHEF + ++ + QS L+
Sbjct: 203 LNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQSYVLDL 262
Query: 639 HGGESKVDPRLQETTFIQHT-FGGRLWSKVKCLRCSHESER-YENIMDLTLEIYGWVESL 696
+ ++ I HT F G L S + C C + S+ + +DL+L+I + L
Sbjct: 263 PNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIKD-KKKL 321
Query: 697 EDALTQFTSPEDLDGENMYKCARCATYVRARKQLSIHEAPNILTIVLKRFQE---GRYGK 753
+ L F E L N Y C C + A KQL IH+ P++L + LKRF+ G K
Sbjct: 322 YECLDSFHKKEQLKDFN-YHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRK 380
Query: 754 INKCITFPEMLDMMPFMTG--------TGDTPPL-YMLYSVVVHLDTQNASFSGHYVSYI 804
++ I FP L+M + + G P + Y L +V H T N GHY+++
Sbjct: 381 LDDFIEFPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVN---EGHYIAFC 437
Query: 805 KDMQGTWFRIDDTQVHPVPMSQVMSEGAYMLFY 837
K G WF+ +D+ V + +V+ E AY+LFY
Sbjct: 438 KISGGQWFKFNDSMVSSISQEEVLKEQAYLLFY 470
>pdb|3M99|A Chain A, Structure Of The Ubp8-Sgf11-Sgf73-Sus1 Saga Dub Module
Length = 471
Score = 126 bits (316), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 98/333 (29%), Positives = 160/333 (48%), Gaps = 35/333 (10%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGK--DWCLMCELEQHVMML--- 589
GL+N G++C+ +++LQCL + + + + HS+ C + D C C L++ V L
Sbjct: 138 GLINMGSTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGA 197
Query: 590 ----RESAGPLSPGRILSHMRSISC------QIGDGSQEDAHEFLRLLVASM-QSICLER 638
+ S+ S R + ++C + SQ+DAHEF + ++ + QS L+
Sbjct: 198 LNTKQASSSSTSTNRQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQSYVLDL 257
Query: 639 HGGESKVDPRLQETTFIQHT-FGGRLWSKVKCLRCSHESER-YENIMDLTLEIYGWVESL 696
+ ++ I HT F G L S + C C + S+ + +DL+L+I + L
Sbjct: 258 PNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLSLDIKD-KKKL 316
Query: 697 EDALTQFTSPEDLDGENMYKCARCATYVRARKQLSIHEAPNILTIVLKRFQE---GRYGK 753
+ L F E L N Y C C + A KQL IH+ P++L + LKRF+ G K
Sbjct: 317 YECLDSFHKKEQLKDFN-YHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRK 375
Query: 754 INKCITFPEMLDMMPFMTG--------TGDTPPL-YMLYSVVVHLDTQNASFSGHYVSYI 804
++ I FP L+M + + G P + Y L +V H T N GHY+++
Sbjct: 376 LDDFIEFPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVN---EGHYIAFC 432
Query: 805 KDMQGTWFRIDDTQVHPVPMSQVMSEGAYMLFY 837
K G WF+ +D+ V + +V+ E AY+LFY
Sbjct: 433 KISGGQWFKFNDSMVSSISQEEVLKEQAYLLFY 465
>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 = 123 bits (309), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 111/362 (30%), Positives = 159/362 (43%), Gaps = 64/362 (17%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGKDWCLMCELEQH------VMM 588
GL N GN+C+ NAVLQCL+ T+PL + LRR G EL + +
Sbjct: 5 GLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQ--ELTEAFADVIGALW 62
Query: 589 LRESAGPLSPGRILSHMRSISCQIGDGSQEDAHEFLRLLVASMQSICLE----------- 637
+S ++P R + + SQ+DA EFL+LL M+ + LE
Sbjct: 63 HPDSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLL---MERLHLEINRRGRRAPPI 119
Query: 638 ----------RHGGESKVDPRL---------------QETTFIQHTFGGRLWSKVKCLRC 672
R GG +P L +E + I F G+L S +KC C
Sbjct: 120 LANGPVPSPPRRGGALLEEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQAC 179
Query: 673 SHESERYENIMDLTLEI-----YGWVESLEDALTQFTSPEDLDGENMYKCARCATYVRAR 727
+ S +E DL+L I G SL D FT E+L+ EN C RC R+
Sbjct: 180 GYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELESENAPVCDRCRQKTRST 239
Query: 728 KQLSIHEAPNILTIVLKRFQEGRYGKINKC---ITFP-EMLDMMPFMTGTGDTPPLYMLY 783
K+L++ P IL + L RF R G I K + FP + L + F + + P+Y LY
Sbjct: 240 KKLTVQRFPRILVLHLNRFSASR-GSIKKSSVGVDFPLQRLSLGDFASDKAGS-PVYQLY 297
Query: 784 SVVVHLDTQNASFSGHYVSYIKDMQGTWFRIDDTQVHPVPMSQVMSEGAYMLFY--MRSC 841
++ H + GHY + + G W +D++V PV +QV S Y+LFY M+
Sbjct: 298 ALCNH---SGSVHYGHYTALCRCQTG-WHVYNDSRVSPVSENQVASSEGYVLFYQLMQEP 353
Query: 842 PR 843
PR
Sbjct: 354 PR 355
>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 = 123 bits (308), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 111/362 (30%), Positives = 159/362 (43%), Gaps = 64/362 (17%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGKDWCLMCELEQH------VMM 588
GL N GN+C+ NAVLQCL+ T+PL + LRR G EL + +
Sbjct: 18 GLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQ--ELTEAFADVIGALW 75
Query: 589 LRESAGPLSPGRILSHMRSISCQIGDGSQEDAHEFLRLLVASMQSICLE----------- 637
+S ++P R + + SQ+DA EFL+LL M+ + LE
Sbjct: 76 HPDSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLL---MERLHLEINRRGRRAPPI 132
Query: 638 ----------RHGGESKVDPRL---------------QETTFIQHTFGGRLWSKVKCLRC 672
R GG +P L +E + I F G+L S +KC C
Sbjct: 133 LANGPVPSPPRRGGALLEEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQAC 192
Query: 673 SHESERYENIMDLTLEI-----YGWVESLEDALTQFTSPEDLDGENMYKCARCATYVRAR 727
+ S +E DL+L I G SL D FT E+L+ EN C RC R+
Sbjct: 193 GYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELESENAPVCDRCRQKTRST 252
Query: 728 KQLSIHEAPNILTIVLKRFQEGRYGKINKC---ITFP-EMLDMMPFMTGTGDTPPLYMLY 783
K+L++ P IL + L RF R G I K + FP + L + F + + P+Y LY
Sbjct: 253 KKLTVQRFPRILVLHLNRFSASR-GSIKKSSVGVDFPLQRLSLGDFASDKAGS-PVYQLY 310
Query: 784 SVVVHLDTQNASFSGHYVSYIKDMQGTWFRIDDTQVHPVPMSQVMSEGAYMLFY--MRSC 841
++ H + GHY + + G W +D++V PV +QV S Y+LFY M+
Sbjct: 311 ALCNH---SGSVHYGHYTALCRCQTG-WHVYNDSRVSPVSENQVASSEGYVLFYQLMQEP 366
Query: 842 PR 843
PR
Sbjct: 367 PR 368
>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 = 122 bits (306), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 108/354 (30%), Positives = 155/354 (43%), Gaps = 62/354 (17%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGKDWCLMCELEQH------VMM 588
GL N GN+C+ NAVLQCL+ T+PL + LRR G EL + +
Sbjct: 24 GLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQ--ELTEAFADVIGALW 81
Query: 589 LRESAGPLSPGRILSHMRSISCQIGDGSQEDAHEFLRLLVASMQSICLE----------- 637
+S ++P R + + SQ+DA EFL+LL M+ + LE
Sbjct: 82 HPDSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLL---MERLHLEINRRGRRAPPI 138
Query: 638 ----------RHGGESKVDPRL---------------QETTFIQHTFGGRLWSKVKCLRC 672
R GG +P L +E + I F G+L S +KC C
Sbjct: 139 LANGPVPSPPRRGGALLEEPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQAC 198
Query: 673 SHESERYENIMDLTLEI-----YGWVESLEDALTQFTSPEDLDGENMYKCARCATYVRAR 727
+ S +E DL+L I G SL D FT E+L+ EN C RC R+
Sbjct: 199 GYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELESENAPVCDRCRQKTRST 258
Query: 728 KQLSIHEAPNILTIVLKRFQEGRYGKINKC---ITFP-EMLDMMPFMTGTGDTPPLYMLY 783
K+L++ P IL + L RF R G I K + FP + L + F + + P+Y LY
Sbjct: 259 KKLTVQRFPRILVLHLNRFSASR-GSIKKSSVGVDFPLQRLSLGDFASDKAGS-PVYQLY 316
Query: 784 SVVVHLDTQNASFSGHYVSYIKDMQGTWFRIDDTQVHPVPMSQVMSEGAYMLFY 837
++ H + GHY + + G W +D++V PV +QV S Y+LFY
Sbjct: 317 ALCNH---SGSVHYGHYTALCRCQTG-WHVYNDSRVSPVSENQVASSEGYVLFY 366
>pdb|2HD5|A Chain A, Usp2 In Complex With Ubiquitin
Length = 359
Score = 110 bits (274), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 99/341 (29%), Positives = 158/341 (46%), Gaps = 34/341 (9%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGKDWCLMCELEQHVMMLRE--S 592
GL N GN+C+ N++LQCL+ T+ L Y L+R + +E+ +++ +
Sbjct: 11 GLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLIQTIWT 70
Query: 593 AGP---LSPGRILSHMRSISCQIGDGSQEDAHEFLRLLVASMQS----ICLERHGGESKV 645
+ P +SP + ++ + + +Q+DA EFLR L+ + + + L +
Sbjct: 71 SSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPENL 130
Query: 646 DPRL--------------QETTFIQHTFGGRLWSKVKCLRCSHESERYENIMDLTLEIY- 690
D +E + I F G+L S + C C + S ++ DL+L I
Sbjct: 131 DHLPDDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPIAK 190
Query: 691 -GWVE-SLEDALTQFTSPEDLDGENMYKCARCATYVRARKQLSIHEAPNILTIVLKRFQE 748
G+ E +L D + FT + LDG+ C RC R K+ SI P IL + LKRF E
Sbjct: 191 RGYPEVTLMDCMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFSE 250
Query: 749 GRY--GKINKCITFP-EMLDMMPFMTGTGDTPPLYMLYSVVVHLDTQNASFSGHYVSYIK 805
R K+ + FP LD+ F + + +Y LY+V H T + GHY +Y +
Sbjct: 251 SRIRTSKLTTFVNFPLRDLDLREFASENTNH-AVYNLYAVSNHSGT---TMGGHYTAYCR 306
Query: 806 DM-QGTWFRIDDTQVHPVPMSQVMSEGAYMLFYMRSCPRPR 845
G W +D+ V P+ SQV + AY+LFY + P R
Sbjct: 307 SPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELASPPSR 347
>pdb|2IBI|A Chain A, Covalent Ubiquitin-Usp2 Complex
Length = 374
Score = 109 bits (273), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 99/341 (29%), Positives = 158/341 (46%), Gaps = 34/341 (9%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGKDWCLMCELEQHVMMLRE--S 592
GL N GN+C+ N++LQCL+ T+ L Y L+R + +E+ +++ +
Sbjct: 37 GLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLIQTIWT 96
Query: 593 AGP---LSPGRILSHMRSISCQIGDGSQEDAHEFLRLLVASMQS----ICLERHGGESKV 645
+ P +SP + ++ + + +Q+DA EFLR L+ + + + L +
Sbjct: 97 SSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPENL 156
Query: 646 DPRL--------------QETTFIQHTFGGRLWSKVKCLRCSHESERYENIMDLTLEIY- 690
D +E + I F G+L S + C C + S ++ DL+L I
Sbjct: 157 DHLPDDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPIAK 216
Query: 691 -GWVE-SLEDALTQFTSPEDLDGENMYKCARCATYVRARKQLSIHEAPNILTIVLKRFQE 748
G+ E +L D + FT + LDG+ C RC R K+ SI P IL + LKRF E
Sbjct: 217 RGYPEVTLMDCMRLFTKEDVLDGDAAPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFSE 276
Query: 749 GRY--GKINKCITFP-EMLDMMPFMTGTGDTPPLYMLYSVVVHLDTQNASFSGHYVSYIK 805
R K+ + FP LD+ F + + +Y LY+V H T + GHY +Y +
Sbjct: 277 SRIRTSKLTTFVNFPLRDLDLREFASENTNH-AVYNLYAVSNHSGT---TMGGHYTAYCR 332
Query: 806 DM-QGTWFRIDDTQVHPVPMSQVMSEGAYMLFYMRSCPRPR 845
G W +D+ V P+ SQV + AY+LFY + P R
Sbjct: 333 SPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELASPPSR 373
>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 = 109 bits (273), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 99/341 (29%), Positives = 158/341 (46%), Gaps = 34/341 (9%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGKDWCLMCELEQHVMMLRE--S 592
GL N GN+C+ N++LQCL+ T+ L Y L+R + +E+ +++ +
Sbjct: 30 GLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLIQTIWT 89
Query: 593 AGP---LSPGRILSHMRSISCQIGDGSQEDAHEFLRLLVASMQS----ICLERHGGESKV 645
+ P +SP + ++ + + +Q+DA EFLR L+ + + + L +
Sbjct: 90 SSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPENL 149
Query: 646 DPRL--------------QETTFIQHTFGGRLWSKVKCLRCSHESERYENIMDLTLEIY- 690
D +E + I F G+L S + C C + S ++ DL+L I
Sbjct: 150 DHLPDDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPIAK 209
Query: 691 -GWVE-SLEDALTQFTSPEDLDGENMYKCARCATYVRARKQLSIHEAPNILTIVLKRFQE 748
G+ E +L D + FT + LDG+ C RC R K+ SI P IL + LKRF E
Sbjct: 210 RGYPEVTLMDCMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFSE 269
Query: 749 GRY--GKINKCITFP-EMLDMMPFMTGTGDTPPLYMLYSVVVHLDTQNASFSGHYVSYIK 805
R K+ + FP LD+ F + + +Y LY+V H T + GHY +Y +
Sbjct: 270 SRIRTSKLTTFVNFPLRDLDLREFASENTNH-AVYNLYAVSNHSGT---TMGGHYTAYCR 325
Query: 806 DM-QGTWFRIDDTQVHPVPMSQVMSEGAYMLFYMRSCPRPR 845
G W +D+ V P+ SQV + AY+LFY + P R
Sbjct: 326 SPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELASPPSR 366
>pdb|3NHE|A Chain A, High Resolution Structure (1.26a) Of Usp2a In Complex With
Ubiquitin
Length = 348
Score = 106 bits (264), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 98/341 (28%), Positives = 157/341 (46%), Gaps = 34/341 (9%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGKDWCLMCELEQHVMMLRE--S 592
GL N GN+ + N++LQCL+ T+ L Y L+R + +E+ +++ +
Sbjct: 11 GLRNLGNTXFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLIQTIWT 70
Query: 593 AGP---LSPGRILSHMRSISCQIGDGSQEDAHEFLRLLVASMQS----ICLERHGGESKV 645
+ P +SP + ++ + + +Q+DA EFLR L+ + + + L +
Sbjct: 71 SSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPENL 130
Query: 646 DPRL--------------QETTFIQHTFGGRLWSKVKCLRCSHESERYENIMDLTLEIY- 690
D +E + I F G+L S + C C + S ++ DL+L I
Sbjct: 131 DHLPDDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPIAK 190
Query: 691 -GWVE-SLEDALTQFTSPEDLDGENMYKCARCATYVRARKQLSIHEAPNILTIVLKRFQE 748
G+ E +L D + FT + LDG+ C RC R K+ SI P IL + LKRF E
Sbjct: 191 RGYPEVTLMDCMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFSE 250
Query: 749 GRY--GKINKCITFP-EMLDMMPFMTGTGDTPPLYMLYSVVVHLDTQNASFSGHYVSYIK 805
R K+ + FP LD+ F + + +Y LY+V H T + GHY +Y +
Sbjct: 251 SRIRTSKLTTFVNFPLRDLDLREFASENTNH-AVYNLYAVSNHSGT---TMGGHYTAYCR 306
Query: 806 DM-QGTWFRIDDTQVHPVPMSQVMSEGAYMLFYMRSCPRPR 845
G W +D+ V P+ SQV + AY+LFY + P R
Sbjct: 307 SPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELASPPSR 347
>pdb|3N3K|A Chain A, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 396
Score = 104 bits (259), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 95/338 (28%), Positives = 150/338 (44%), Gaps = 44/338 (13%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGKDWCLMCELEQHVMMLRESAG 594
GL N GN+CY N++LQCL C P + R+ C +D L H + E G
Sbjct: 64 GLRNLGNTCYMNSILQCL-CNAPHLADYFNRN-----CYQDDINRSNLLGHKGEVAEEFG 117
Query: 595 P------------LSPGRILSHMRSISCQIGDGSQEDAHEFLRLLVASMQSIC------- 635
+SP + I+ Q SQ+D+ E L L+ +
Sbjct: 118 IIMKALWTGQYRYISPKDFKITIGKINDQFAGYSQQDSQELLLFLMDGLHEDLNKADNRK 177
Query: 636 -LERHGGESKVDPRLQETTFIQHT----------FGGRLWSKVKCLRCSHESERYENIMD 684
+ + D + E + +H F G+ S V+CL C +S +E M
Sbjct: 178 RYKEENNDHLDDFKAAEHAWQKHKQLNESIIVALFQGQFKSTVQCLTCHKKSRTFEAFMY 237
Query: 685 LTLEIYGWVE-SLEDALTQFTSPEDLDGENMYKCARCATYVRARKQLSIHEAPNILTIVL 743
L+L + + +L+D L F+ E L N + C+ C + K++ I + P +L + L
Sbjct: 238 LSLPLASTSKCTLQDCLRLFSKEEKLTDNNRFYCSHCRARRDSLKKIEIWKLPPVLLVHL 297
Query: 744 KRFQ-EGRYG-KINKCITFP-EMLDMMPFMTGTGDTPPLYMLYSVVVHLDTQNASFSGHY 800
KRF +GR+ K+ + FP E LD+ ++ G + Y L+SV H + GHY
Sbjct: 298 KRFSYDGRWKQKLQTSVDFPLENLDLSQYVIGPKNNLKKYNLFSVSNHYGGLDG---GHY 354
Query: 801 VSYIKD-MQGTWFRIDDTQVHPVPMSQVMSEGAYMLFY 837
+Y K+ + WF+ DD +V + +S V S AY+LFY
Sbjct: 355 TAYCKNAARQRWFKFDDHEVSDISVSSVKSSAAYILFY 392
>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 = 103 bits (256), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 90/353 (25%), Positives = 145/353 (41%), Gaps = 53/353 (15%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLR--------RSHSSACCGKDWCLMCELEQHV 586
GL N GN+ + N+ LQCL+ T PL Y L+ R + G+ EL + +
Sbjct: 10 GLGNLGNTXFMNSALQCLSNTAPLTDYFLKDEYEAEINRDNPLGMKGEIAEAYAELIKQM 69
Query: 587 MMLRESAGPLSPGRILSHMRSISCQIGDGSQEDAHEFLRLLVASMQSIC--------LER 638
R++ ++P + + + Q Q+D+ E L L+ + LE
Sbjct: 70 WSGRDAH--VAPRMFKTQVGRFAPQFSGYQQQDSQELLAFLLDGLHEDLNRVKKKPYLEL 127
Query: 639 HGGESKVDP----------RLQETTFIQHTFGGRLWSKVKCLRCSHESERYENIMDLTLE 688
+ D RL+ + I TF G S + C C+ S ++ LTL
Sbjct: 128 KDANGRPDAVVAKEAWENHRLRNDSVIVDTFHGLFKSTLVCPECAKVSVTFDPFCYLTLP 187
Query: 689 I------------------YGWVESLEDALTQFTSPEDLDGENMYKCARCATYVRARKQL 730
+ +L D + FT+ E L + + C C + +A K+
Sbjct: 188 LPLKKDRVMEGPMLQPQKKKKTTVALRDCIELFTTMETLGEHDPWYCPNCKKHQQATKKF 247
Query: 731 SIHEAPNILTIVLKRFQEGRY--GKINKCITFP-EMLDMMPFMTGTGDTPPLYMLYSVVV 787
+ P IL + LKRF RY K++ + FP L+M F+ P +Y L +V
Sbjct: 248 DLWSLPKILVVHLKRFSYNRYWRDKLDTVVEFPIRGLNMSEFVCNLSARPYVYDLIAVSN 307
Query: 788 HLDTQNASFSGHYVSYIKD-MQGTWFRIDDTQVHPVPMSQVMSEGAYMLFYMR 839
H GHY +Y K+ + G W+ DD+ V Q++++ AY+LFY R
Sbjct: 308 HYGAMGV---GHYTAYAKNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFYQR 357
>pdb|2GFO|A Chain A, Structure Of The Catalytic Domain Of Human Ubiquitin
Carboxyl-terminal Hydrolase 8
Length = 396
Score = 102 bits (253), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 94/338 (27%), Positives = 148/338 (43%), Gaps = 44/338 (13%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGKDWCLMCELEQHVMMLRESAG 594
GL N GN+CY N++LQCL C P + R+ C +D L H + E G
Sbjct: 64 GLRNLGNTCYXNSILQCL-CNAPHLADYFNRN-----CYQDDINRSNLLGHKGEVAEEFG 117
Query: 595 P------------LSPGRILSHMRSISCQIGDGSQEDAHEFLRLLVASMQSIC------- 635
+SP + I+ Q SQ+D+ E L L +
Sbjct: 118 IIXKALWTGQYRYISPKDFKITIGKINDQFAGYSQQDSQELLLFLXDGLHEDLNKADNRK 177
Query: 636 -LERHGGESKVDPRLQETTFIQHT----------FGGRLWSKVKCLRCSHESERYENIMD 684
+ + D + E + +H F G+ S V+CL C +S +E
Sbjct: 178 RYKEENNDHLDDFKAAEHAWQKHKQLNESIIVALFQGQFKSTVQCLTCHKKSRTFEAFXY 237
Query: 685 LTLEIYGWVE-SLEDALTQFTSPEDLDGENMYKCARCATYVRARKQLSIHEAPNILTIVL 743
L+L + + +L+D L F+ E L N + C+ C + K++ I + P +L + L
Sbjct: 238 LSLPLASTSKCTLQDCLRLFSKEEKLTDNNRFYCSHCRARRDSLKKIEIWKLPPVLLVHL 297
Query: 744 KRFQ-EGRYG-KINKCITFP-EMLDMMPFMTGTGDTPPLYMLYSVVVHLDTQNASFSGHY 800
KRF +GR+ K+ + FP E LD+ ++ G + Y L+SV H + GHY
Sbjct: 298 KRFSYDGRWKQKLQTSVDFPLENLDLSQYVIGPKNNLKKYNLFSVSNHYGGLDG---GHY 354
Query: 801 VSYIKD-MQGTWFRIDDTQVHPVPMSQVMSEGAYMLFY 837
+Y K+ + WF+ DD +V + +S V S AY+LFY
Sbjct: 355 TAYCKNAARQRWFKFDDHEVSDISVSSVKSSAAYILFY 392
>pdb|2F1Z|A Chain A, Crystal Structure Of Hausp
pdb|2F1Z|B Chain B, Crystal Structure Of Hausp
Length = 522
Score = 87.0 bits (214), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 87/329 (26%), Positives = 140/329 (42%), Gaps = 47/329 (14%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPL--VIYLLRRSHSSACCGKDWCLMCELEQHVMMLRES 592
GL N G +CY N++LQ L T L +Y++ + + L++ L+ S
Sbjct: 177 GLKNQGATCYMNSLLQTLFFTNQLRKAVYMMPTEGDDSSKS----VPLALQRVFYELQHS 232
Query: 593 AGPLSPGRILSHMRSISCQIGDG-SQEDAHEFLRLLVASMQSICLERHGGESKVDPRLQE 651
P+ ++ +S + D Q D E R+L+ ++ E+K+ E
Sbjct: 233 DKPVGTKKL---TKSFGWETLDSFMQHDVQELCRVLLDNV----------ENKMKGTCVE 279
Query: 652 TTFIQHTFGGRLWSKVKCLRCSHESERYENIMDLTLEIYGWVESLEDALTQFTSPEDLDG 711
T I F G++ S ++C + S+R E+ D+ L I G +++ ++ + + E LDG
Sbjct: 280 GT-IPKLFRGKMVSYIQCKEVDYRSDRREDYYDIQLSIKG-KKNIFESFVDYVAVEQLDG 337
Query: 712 ENMYKCARCATYVRARKQLSIHEAPNILTIVLKRF----QEGRYGKINKCITFPEMLDMM 767
+N Y A K + P +L + L RF Q + KIN FPE L +
Sbjct: 338 DNKYDAGEHGLQ-EAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLD 396
Query: 768 PFMTGTGDTPPL-YMLYSVVVHLDTQNASFSGHYVSYIKDM-QGTWFRIDDTQV------ 819
F+ T P Y+L++V+VH + GHYV Y+ G W + DD V
Sbjct: 397 EFLQKTDPKDPANYILHAVLVH---SGDNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKE 453
Query: 820 ---------HPVPMSQVMSEGAYMLFYMR 839
H +S AYML Y+R
Sbjct: 454 EAIEHNYGGHDDDLSVRHCTNAYMLVYIR 482
>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 = 84.7 bits (208), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 87/330 (26%), Positives = 140/330 (42%), Gaps = 47/330 (14%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPL--VIYLLRRSHSSACCGKDWCLMCELEQHVMMLRES 592
GL N G +CY N++LQ L T L +Y++ + + L++ L+ S
Sbjct: 8 GLKNQGATCYMNSLLQTLFFTNQLRKAVYMMPTEGDDSSKS----VPLALQRVFYELQHS 63
Query: 593 AGPLSPGRILSHMRSISCQIGDG-SQEDAHEFLRLLVASMQSICLERHGGESKVDPRLQE 651
P+ ++ +S + D Q D E R+L+ ++ E+K+ E
Sbjct: 64 DKPVGTKKL---TKSFGWETLDSFMQHDVQELCRVLLDNV----------ENKMKGTCVE 110
Query: 652 TTFIQHTFGGRLWSKVKCLRCSHESERYENIMDLTLEIYGWVESLEDALTQFTSPEDLDG 711
T I F G++ S ++C + S+R E+ D+ L I G +++ ++ + + E LDG
Sbjct: 111 GT-IPKLFRGKMVSYIQCKEVDYRSDRREDYYDIQLSIKGK-KNIFESFVDYVAVEQLDG 168
Query: 712 ENMYKCARCATYVRARKQLSIHEAPNILTIVLKRF----QEGRYGKINKCITFPEMLDMM 767
+N Y A K + P +L + L RF Q + KIN FPE L +
Sbjct: 169 DNKYDAGEHGLQ-EAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLD 227
Query: 768 PFMTGTGDTPPL-YMLYSVVVHLDTQNASFSGHYVSYIKDM-QGTWFRIDDTQV------ 819
F+ T P Y+L++V+VH + GHYV Y+ G W + DD V
Sbjct: 228 EFLQKTDPKDPANYILHAVLVH---SGDNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKE 284
Query: 820 ---------HPVPMSQVMSEGAYMLFYMRS 840
H +S AYML Y+R
Sbjct: 285 EAIEHNYGGHDDDLSVRHCTNAYMLVYIRE 314
>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 = 75.1 bits (183), Expect = 2e-13, Method: Composition-based stats.
Identities = 87/327 (26%), Positives = 134/327 (40%), Gaps = 43/327 (13%)
Query: 535 GLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGKDWCLMCELEQHVMMLRESAG 594
GL N G +CY N++LQ L T L + K L L++ L+ S
Sbjct: 8 GLKNQGATCYXNSLLQTLFFTNQLRKAVYXXPTEGDDSSKSVPL--ALQRVFYELQHSDK 65
Query: 595 PLSPGRILSHMRSISCQIGDG-SQEDAHEFLRLLVASMQSICLERHGGESKVDPRLQETT 653
P+ ++ +S + D Q D E R+L+ ++ E+K E T
Sbjct: 66 PVGTKKL---TKSFGWETLDSFXQHDVQELCRVLLDNV----------ENKXKGTCVEGT 112
Query: 654 FIQHTFGGRLWSKVKCLRCSHESERYENIMDLTLEIYGWVESLEDALTQFTSPEDLDGEN 713
I F G+ S ++C + S+R E+ D+ L I G +++ ++ + + E LDG+N
Sbjct: 113 -IPKLFRGKXVSYIQCKEVDYRSDRREDYYDIQLSIKG-KKNIFESFVDYVAVEQLDGDN 170
Query: 714 MYKCARCATYVRARKQLSIHEAPNILTIVLKRF----QEGRYGKINKCITFPEMLDMMPF 769
Y A K + P +L + L RF Q + KIN FPE L + F
Sbjct: 171 KYDAGEHGLQ-EAEKGVKFLTLPPVLHLQLXRFXYDPQTDQNIKINDRFEFPEQLPLDEF 229
Query: 770 MTGTGDTPPL-YMLYSVVVHLDTQNASFSGHYVSYIKDM-QGTWFRIDDTQV-------- 819
+ T P Y+L++V+VH + GHYV Y+ G W + DD V
Sbjct: 230 LQKTDPKDPANYILHAVLVH---SGDNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEA 286
Query: 820 -------HPVPMSQVMSEGAYMLFYMR 839
H +S AY L Y+R
Sbjct: 287 IEHNYGGHDDDLSVRHCTNAYXLVYIR 313
>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 = 57.8 bits (138), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 96/398 (24%), Positives = 149/398 (37%), Gaps = 99/398 (24%)
Query: 533 PRGLLNCGNSCYANAVLQCLTCTKPLVIYLLRRSHSSACCGKDWCLMCELEQHVMMLRE- 591
P GL N GN+CY NA +QC+ L L R + + G+ M + LR+
Sbjct: 14 PCGLTNLGNTCYMNATVQCIRSVPELKDALKRYAGALRASGE----MASAQYITAALRDL 69
Query: 592 ------SAGPLSPGRILSHMRSISCQI------GDGSQEDAHE----FLRLLVASMQSI- 634
++ + P +L + Q G Q+DA+E +R+L +++I
Sbjct: 70 FDSMDKTSSSIPPIILLQFLHMAFPQFAEKGEQGQYLQQDANECWIQMMRVLQQKLEAIE 129
Query: 635 ---CLERHGGESKVDPRLQETTFIQHTFGGRLWSKVKCLRCSHE--SERYENIMDLTLEI 689
E + ++ + I FG + +KC E ++ EN + L+ I
Sbjct: 130 DDSVKETDSSSASAATPSKKKSLIDQFFGVEFETTMKCTESEEEEVTKGKENQLQLSCFI 189
Query: 690 YGWVESLEDALTQFTSPEDLDGENMYKCARCATYVRARKQLSIHEAPNILTIVLKRF--- 746
V+ L L + E++ ++ R A Y+++ K I P LTI + RF
Sbjct: 190 NQEVKYLFTGL-KLRLQEEITKQSP-TLQRNALYIKSSK---ISRLPAYLTIQMVRFFYK 244
Query: 747 -QEGRYGKINKCITFPEMLDMMPFMT--------------------------GTGDTP-- 777
+E K+ K + FP MLDM T T D
Sbjct: 245 EKESVNAKVLKDVKFPLMLDMYELCTPELQEKMVSFRSKFKDLEDKKVNQQPNTSDKKSS 304
Query: 778 --------PL-------------YMLYSVVVHLDTQNASFSGHYVSYIKDMQGTWFRIDD 816
P Y L +V+ H +S SGHYVS++K Q W + DD
Sbjct: 305 PQKEVKYEPFSFADDIGSNNCGYYDLQAVLTH--QGRSSSSGHYVSWVKRKQDEWIKFDD 362
Query: 817 TQVHPVPMSQV--MSEG-----AYMLFYMRSCPRPRRT 847
+V V + +S G AY+L Y PRR
Sbjct: 363 DKVSIVTPEDILRLSGGGDWHIAYVLLY-----GPRRV 395
>pdb|3OXG|A Chain A, Human Lysine Methyltransferase Smyd3 In Complex With
Adohcy (Form Iii)
Length = 464
Score = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 158 LCARCF--APATTRCSRCKSVRYCSGKCQIIHWRQVHKQECQQLEKTSSSSP 207
+C RC RCS+C+ +YCS KCQ W HK+EC+ L+ P
Sbjct: 84 VCDRCLLGKEKLMRCSQCRVAKYCSAKCQKKAWPD-HKRECKCLKSCKPRYP 134
>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 = 39.7 bits (91), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 158 LCARCF--APATTRCSRCKSVRYCSGKCQIIHWRQVHKQECQQLEKTSSSSP 207
+C RC RCS+C+ +YCS KCQ W HK+EC+ L+ P
Sbjct: 48 VCDRCLLGKEKLMRCSQCRVAKYCSAKCQKKAWPD-HKRECKCLKSCKPRYP 98
>pdb|3QWP|A Chain A, Crystal Structure Of Set And Mynd Domain Containing 3;
Zinc Finger Mynd Domain-Containing Protein 1
Length = 429
Score = 39.7 bits (91), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 158 LCARCF--APATTRCSRCKSVRYCSGKCQIIHWRQVHKQECQQLEKTSSSSP 207
+C RC RCS+C+ +YCS KCQ W HK+EC+ L+ P
Sbjct: 49 VCDRCLLGKEKLMRCSQCRVAKYCSAKCQKKAWPD-HKRECKCLKSCKPRYP 99
>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 = 39.7 bits (91), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 158 LCARCF--APATTRCSRCKSVRYCSGKCQIIHWRQVHKQECQQLEKTSSSSP 207
+C RC RCS+C+ +YCS KCQ W HK+EC+ L+ P
Sbjct: 48 VCDRCLLGKEKLMRCSQCRVAKYCSAKCQKKAWPD-HKRECKCLKSCKPRYP 98
>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 = 39.7 bits (91), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 158 LCARCF--APATTRCSRCKSVRYCSGKCQIIHWRQVHKQECQQLEKTSSSSP 207
+C RC RCS+C+ +YCS KCQ W HK+EC+ L+ P
Sbjct: 50 VCDRCLLGKEKLMRCSQCRVAKYCSAKCQKKAWPD-HKRECKCLKSCKPRYP 100
>pdb|3MEK|A Chain A, Crystal Structure Of Human Histone-Lysine N-
Methyltransferase Smyd3 In Complex With S-Adenosyl-L-
Methionine
Length = 429
Score = 39.3 bits (90), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 158 LCARCF--APATTRCSRCKSVRYCSGKCQIIHWRQVHKQECQQLEKTSSSSP 207
+C RC RCS+C+ +YCS KCQ W HK+EC+ L+ P
Sbjct: 49 VCDRCLLGKEKLXRCSQCRVAKYCSAKCQKKAWPD-HKRECKCLKSCKPRYP 99
>pdb|2D8Q|A Chain A, Solution Structure Of The Mynd Domain Of The Human Zinc
Finger Mynd Domain-Containing Protein 10
Length = 70
Score = 38.5 bits (88), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 159 CARCFAPATTRCSRCKSVRYCSGKCQIIHWRQVHKQEC 196
CA C A A+ RCSRC++ YC +CQ+ HW + H + C
Sbjct: 18 CAYCSAEASKRCSRCQNEWYCCRECQVKHWEK-HGKTC 54
>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 = 38.1 bits (87), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 159 CARCFAPATTRCSRCKSVRYCSGKCQIIHWRQVHKQEC 196
CA C A A+ RCSRC++ YC +CQ+ HW + H + C
Sbjct: 18 CAYCSAEASKRCSRCQNEWYCCRECQVKHWEK-HGKTC 54
>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 = 33.9 bits (76), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 159 CARCFA--PATTRCSRCKSVRYCSGKCQIIHWRQVHKQECQQL 199
C CFA ++C RCK YC +CQ W +HK EC +
Sbjct: 52 CECCFARKEGLSKCGRCKQAFYCDVECQKEDW-PLHKLECSSM 93
>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 = 33.5 bits (75), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 159 CARCFA--PATTRCSRCKSVRYCSGKCQIIHWRQVHKQEC 196
C CF ++C RCK YC+ +CQ W +HK EC
Sbjct: 52 CEYCFTRKEGLSKCGRCKQAFYCNVECQKEDW-PMHKLEC 90
>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 = 33.5 bits (75), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 159 CARCFA--PATTRCSRCKSVRYCSGKCQIIHWRQVHKQEC 196
C CF ++C RCK YC+ +CQ W +HK EC
Sbjct: 52 CEYCFTRKEGLSKCGRCKQAFYCNVECQKEDW-PMHKLEC 90
>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 = 33.5 bits (75), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 159 CARCFA--PATTRCSRCKSVRYCSGKCQIIHWRQVHKQEC 196
C CF ++C RCK YC+ +CQ W +HK EC
Sbjct: 52 CEYCFTRKEGLSKCGRCKQAFYCNVECQKEDW-PMHKLEC 90
>pdb|3N71|A Chain A, Crystal Structure Of Cardiac Specific Histone
Methyltransferase Smyd1
Length = 490
Score = 33.1 bits (74), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 158 LCARCFA--PATTRCSRCKSVRYCSGKCQIIHWRQVHKQECQQLEK 201
+C CF RC +CK YC CQ W HK EC ++K
Sbjct: 51 VCHTCFKRQEKLHRCGQCKFAHYCDRTCQKDAWLN-HKNECAAIKK 95
>pdb|3ZIU|A Chain A, Crystal Structure Of Mycoplasma Mobile Leucyl-trna
Synthetase With Leu-ams In The Active Site
pdb|3ZIU|B Chain B, Crystal Structure Of Mycoplasma Mobile Leucyl-trna
Synthetase With Leu-ams In The Active Site
Length = 637
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 35/146 (23%), Positives = 63/146 (43%), Gaps = 23/146 (15%)
Query: 687 LEIYGWVESLEDALTQFTSPEDLDGENMYKCARCATYVRARKQLSIHEAPNILTIVLKRF 746
L + W +SL+ T + E++DG+ YK ++ AR++ P
Sbjct: 215 LNLLDWPDSLKKLQTNWIGKEEIDGKITYK---LQDWIFARQRYWGEPFPVYFD------ 265
Query: 747 QEGRYGKINKCITFPEMLDMMPFMTGTGDTPPL-------YMLYSVVVHLDT----QNAS 795
++ I++ + P M ++MP +GTG+ P Y + + DT Q A
Sbjct: 266 EDNNVYLIDELVELPHMENIMP--SGTGEGPLATNTEWVQYKKNNKIFKRDTNTMPQWAG 323
Query: 796 FSGHYVSYI-KDMQGTWFRIDDTQVH 820
+Y++YI K GT+ ID + +
Sbjct: 324 SCWYYLAYIMKQEDGTYLPIDSKKAY 349
>pdb|2EOW|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
368- 400) Of Human Zinc Finger Protein 347
Length = 46
Score = 29.6 bits (65), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 712 ENMYKCARCATYVRARKQLSIHEA 735
E YKC C RAR L+IH+A
Sbjct: 10 EKPYKCNECGKAFRARSSLAIHQA 33
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
0.317 0.130 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 29,895,976
Number of Sequences: 62578
Number of extensions: 1164835
Number of successful extensions: 2602
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 2521
Number of HSP's gapped (non-prelim): 41
length of query: 1071
length of database: 14,973,337
effective HSP length: 109
effective length of query: 962
effective length of database: 8,152,335
effective search space: 7842546270
effective search space used: 7842546270
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (26.6 bits)