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= psy2608
(321 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 = 97.4 bits (241), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 53/161 (32%), Positives = 83/161 (51%), Gaps = 25/161 (15%)
Query: 144 IASKREQTEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV-- 201
+ ++++ + L C+E FT E LGE++ +YCP CK HQ A+KK +++ LP +L+V
Sbjct: 201 LQPQKKKKTTVALRDCIELFTTMETLGEHDPWYCPNCKKHQQATKKFDLWSLPKILVVHL 260
Query: 202 --------------------LRNTTVQSHRLTRGHDPFDLKYSLYAIVCHSGILGGGHYV 241
+R + P+ Y L A+ H G +G GHY
Sbjct: 261 KRFSYNRYWRDKLDTVVEFPIRGLNMSEFVCNLSARPY--VYDLIAVSNHYGAMGVGHYT 318
Query: 242 SYALNP-NGKWYAYNDSSCRQVSSGEMDTSCAYMLFYERKD 281
+YA N NGKWY ++DS+ S ++ T AY+LFY+R+D
Sbjct: 319 AYAKNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFYQRRD 359
>pdb|3NHE|A Chain A, High Resolution Structure (1.26a) Of Usp2a In Complex With
Ubiquitin
Length = 348
Score = 74.7 bits (182), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 50/145 (34%), Positives = 78/145 (53%), Gaps = 20/145 (13%)
Query: 154 INLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV----LRNTTVQS 209
+ L C+ FTKE+ L +EK C +C+ + KK I R P +L++ + +++
Sbjct: 196 VTLMDCMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRT 255
Query: 210 HRLTRGHD----PFDLK-----------YSLYAIVCHSGILGGGHYVSYALNPN-GKWYA 253
+LT + DL+ Y+LYA+ HSG GGHY +Y +P G+W+
Sbjct: 256 SKLTTFVNFPLRDLDLREFASENTNHAVYNLYAVSNHSGTTMGGHYTAYCRSPGTGEWHT 315
Query: 254 YNDSSCRQVSSGEMDTSCAYMLFYE 278
+NDSS +SS ++ TS AY+LFYE
Sbjct: 316 FNDSSVTPMSSSQVRTSDAYLLFYE 340
>pdb|2HD5|A Chain A, Usp2 In Complex With Ubiquitin
Length = 359
Score = 74.7 bits (182), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 50/145 (34%), Positives = 78/145 (53%), Gaps = 20/145 (13%)
Query: 154 INLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV----LRNTTVQS 209
+ L C+ FTKE+ L +EK C +C+ + KK I R P +L++ + +++
Sbjct: 196 VTLMDCMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRT 255
Query: 210 HRLTRGHD----PFDLK-----------YSLYAIVCHSGILGGGHYVSYALNPN-GKWYA 253
+LT + DL+ Y+LYA+ HSG GGHY +Y +P G+W+
Sbjct: 256 SKLTTFVNFPLRDLDLREFASENTNHAVYNLYAVSNHSGTTMGGHYTAYCRSPGTGEWHT 315
Query: 254 YNDSSCRQVSSGEMDTSCAYMLFYE 278
+NDSS +SS ++ TS AY+LFYE
Sbjct: 316 FNDSSVTPMSSSQVRTSDAYLLFYE 340
>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 = 74.7 bits (182), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 50/145 (34%), Positives = 78/145 (53%), Gaps = 20/145 (13%)
Query: 154 INLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV----LRNTTVQS 209
+ L C+ FTKE+ L +EK C +C+ + KK I R P +L++ + +++
Sbjct: 215 VTLMDCMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRT 274
Query: 210 HRLTRGHD----PFDLK-----------YSLYAIVCHSGILGGGHYVSYALNPN-GKWYA 253
+LT + DL+ Y+LYA+ HSG GGHY +Y +P G+W+
Sbjct: 275 SKLTTFVNFPLRDLDLREFASENTNHAVYNLYAVSNHSGTTMGGHYTAYCRSPGTGEWHT 334
Query: 254 YNDSSCRQVSSGEMDTSCAYMLFYE 278
+NDSS +SS ++ TS AY+LFYE
Sbjct: 335 FNDSSVTPMSSSQVRTSDAYLLFYE 359
>pdb|3N3K|A Chain A, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 396
Score = 73.6 bits (179), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 46/148 (31%), Positives = 73/148 (49%), Gaps = 21/148 (14%)
Query: 151 TEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV-LRNTTVQS 209
T L CL F+KEE L +N ++YC C+ + + KK+EI++LPPVL+V L+ +
Sbjct: 245 TSKCTLQDCLRLFSKEEKLTDNNRFYCSHCRARRDSLKKIEIWKLPPVLLVHLKRFSYDG 304
Query: 210 HRLTRGHDPFDL-------------------KYSLYAIVCHSGILGGGHYVSYALN-PNG 249
+ D KY+L+++ H G L GGHY +Y N
Sbjct: 305 RWKQKLQTSVDFPLENLDLSQYVIGPKNNLKKYNLFSVSNHYGGLDGGHYTAYCKNAARQ 364
Query: 250 KWYAYNDSSCRQVSSGEMDTSCAYMLFY 277
+W+ ++D +S + +S AY+LFY
Sbjct: 365 RWFKFDDHEVSDISVSSVKSSAAYILFY 392
>pdb|2GFO|A Chain A, Structure Of The Catalytic Domain Of Human Ubiquitin
Carboxyl-terminal Hydrolase 8
Length = 396
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 46/148 (31%), Positives = 73/148 (49%), Gaps = 21/148 (14%)
Query: 151 TEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV-LRNTTVQS 209
T L CL F+KEE L +N ++YC C+ + + KK+EI++LPPVL+V L+ +
Sbjct: 245 TSKCTLQDCLRLFSKEEKLTDNNRFYCSHCRARRDSLKKIEIWKLPPVLLVHLKRFSYDG 304
Query: 210 HRLTRGHDPFDL-------------------KYSLYAIVCHSGILGGGHYVSYALN-PNG 249
+ D KY+L+++ H G L GGHY +Y N
Sbjct: 305 RWKQKLQTSVDFPLENLDLSQYVIGPKNNLKKYNLFSVSNHYGGLDGGHYTAYCKNAARQ 364
Query: 250 KWYAYNDSSCRQVSSGEMDTSCAYMLFY 277
+W+ ++D +S + +S AY+LFY
Sbjct: 365 RWFKFDDHEVSDISVSSVKSSAAYILFY 392
>pdb|4FIP|A Chain A, Structure Of The Saga Ubp8(S144n)SGF11(1-72,
Delta-Znf)SUS1SGF73 Dub Module
pdb|4FIP|E Chain E, Structure Of The Saga Ubp8(S144n)SGF11(1-72,
Delta-Znf)SUS1SGF73 Dub Module
pdb|4FK5|A Chain A, Structure Of The Saga Ubp8(S144n)SGF11SUS1SGF73 DUB MODULE
Length = 476
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 43/154 (27%), Positives = 75/154 (48%), Gaps = 30/154 (19%)
Query: 159 CLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV----------------- 201
CL+SF K+E L ++ Y+C +C + Q A K+L I++LP VL++
Sbjct: 324 CLDSFHKKEQL-KDFNYHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRKLD 382
Query: 202 ----------LRN--TTVQSHRLTRGHDPFDLKYSLYAIVCHSGILGGGHYVSYALNPNG 249
++N +T + + + D+ Y L IV H G + GHY+++ G
Sbjct: 383 DFIEFPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVNEGHYIAFCKISGG 442
Query: 250 KWYAYNDSSCRQVSSGEMDTSCAYMLFYERKDLD 283
+W+ +NDS +S E+ AY+LFY + ++
Sbjct: 443 QWFKFNDSMVSSISQEEVLKEQAYLLFYTIRQVN 476
>pdb|3MHH|A Chain A, Structure Of The Saga Ubp8SGF11SUS1SGF73 DUB MODULE
pdb|3MHS|A Chain A, Structure Of The Saga Ubp8SGF11SUS1SGF73 DUB MODULE BOUND
Ubiquitin Aldehyde
pdb|4FJC|A Chain A, Structure Of The Saga Ubp8SGF11(1-72, Delta-Znf)SUS1SGF73
DUB Module
pdb|4FJC|E Chain E, Structure Of The Saga Ubp8SGF11(1-72, Delta-Znf)SUS1SGF73
DUB Module
Length = 476
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 43/154 (27%), Positives = 75/154 (48%), Gaps = 30/154 (19%)
Query: 159 CLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV----------------- 201
CL+SF K+E L ++ Y+C +C + Q A K+L I++LP VL++
Sbjct: 324 CLDSFHKKEQL-KDFNYHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRKLD 382
Query: 202 ----------LRN--TTVQSHRLTRGHDPFDLKYSLYAIVCHSGILGGGHYVSYALNPNG 249
++N +T + + + D+ Y L IV H G + GHY+++ G
Sbjct: 383 DFIEFPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVNEGHYIAFCKISGG 442
Query: 250 KWYAYNDSSCRQVSSGEMDTSCAYMLFYERKDLD 283
+W+ +NDS +S E+ AY+LFY + ++
Sbjct: 443 QWFKFNDSMVSSISQEEVLKEQAYLLFYTIRQVN 476
>pdb|3M99|A Chain A, Structure Of The Ubp8-Sgf11-Sgf73-Sus1 Saga Dub Module
Length = 471
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 43/154 (27%), Positives = 75/154 (48%), Gaps = 30/154 (19%)
Query: 159 CLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV----------------- 201
CL+SF K+E L ++ Y+C +C + Q A K+L I++LP VL++
Sbjct: 319 CLDSFHKKEQL-KDFNYHCGECNSTQDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRKLD 377
Query: 202 ----------LRN--TTVQSHRLTRGHDPFDLKYSLYAIVCHSGILGGGHYVSYALNPNG 249
++N +T + + + D+ Y L IV H G + GHY+++ G
Sbjct: 378 DFIEFPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVNEGHYIAFCKISGG 437
Query: 250 KWYAYNDSSCRQVSSGEMDTSCAYMLFYERKDLD 283
+W+ +NDS +S E+ AY+LFY + ++
Sbjct: 438 QWFKFNDSMVSSISQEEVLKEQAYLLFYTIRQVN 471
>pdb|2IBI|A Chain A, Covalent Ubiquitin-Usp2 Complex
Length = 374
Score = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 48/145 (33%), Positives = 76/145 (52%), Gaps = 20/145 (13%)
Query: 154 INLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPPVLIV----LRNTTVQS 209
+ L C+ FTKE+ L + C +C+ + KK I R P +L++ + +++
Sbjct: 222 VTLMDCMRLFTKEDVLDGDAAPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFSESRIRT 281
Query: 210 HRLTRGHD----PFDLK-----------YSLYAIVCHSGILGGGHYVSYALNPN-GKWYA 253
+LT + DL+ Y+LYA+ HSG GGHY +Y +P G+W+
Sbjct: 282 SKLTTFVNFPLRDLDLREFASENTNHAVYNLYAVSNHSGTTMGGHYTAYCRSPGTGEWHT 341
Query: 254 YNDSSCRQVSSGEMDTSCAYMLFYE 278
+NDSS +SS ++ TS AY+LFYE
Sbjct: 342 FNDSSVTPMSSSQVRTSDAYLLFYE 366
>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 = 68.6 bits (166), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 51/169 (30%), Positives = 75/169 (44%), Gaps = 20/169 (11%)
Query: 129 YQSSLEKVFEEHETCIASKREQTEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQLASK 188
Y+S+ +VF + I K ++L C FTKEE L C +C+ ++K
Sbjct: 194 YRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELESENAPVCDRCRQKTRSTK 253
Query: 189 KLEIYRLPPVLIVLRNTTVQS---------------HRLTRGHDPFDLK----YSLYAIV 229
KL + R P +L++ N S RL+ G D Y LYA+
Sbjct: 254 KLTVQRFPRILVLHLNRFSASRGSIKKSSVGVDFPLQRLSLGDFASDKAGSPVYQLYALC 313
Query: 230 CHSGILGGGHYVSYALNPNGKWYAYNDSSCRQVSSGEMDTSCAYMLFYE 278
HSG + GHY + G W+ YNDS VS ++ +S Y+LFY+
Sbjct: 314 NHSGSVHYGHYTALCRCQTG-WHVYNDSRVSPVSENQVASSEGYVLFYQ 361
>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 = 68.6 bits (166), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 51/169 (30%), Positives = 75/169 (44%), Gaps = 20/169 (11%)
Query: 129 YQSSLEKVFEEHETCIASKREQTEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQLASK 188
Y+S+ +VF + I K ++L C FTKEE L C +C+ ++K
Sbjct: 181 YRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELESENAPVCDRCRQKTRSTK 240
Query: 189 KLEIYRLPPVLIVLRNTTVQS---------------HRLTRGHDPFDLK----YSLYAIV 229
KL + R P +L++ N S RL+ G D Y LYA+
Sbjct: 241 KLTVQRFPRILVLHLNRFSASRGSIKKSSVGVDFPLQRLSLGDFASDKAGSPVYQLYALC 300
Query: 230 CHSGILGGGHYVSYALNPNGKWYAYNDSSCRQVSSGEMDTSCAYMLFYE 278
HSG + GHY + G W+ YNDS VS ++ +S Y+LFY+
Sbjct: 301 NHSGSVHYGHYTALCRCQTG-WHVYNDSRVSPVSENQVASSEGYVLFYQ 348
>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 = 68.6 bits (166), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 51/169 (30%), Positives = 75/169 (44%), Gaps = 20/169 (11%)
Query: 129 YQSSLEKVFEEHETCIASKREQTEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQLASK 188
Y+S+ +VF + I K ++L C FTKEE L C +C+ ++K
Sbjct: 200 YRSTTFEVFCDLSLPIPKKGFAGGKVSLRDCFNLFTKEEELESENAPVCDRCRQKTRSTK 259
Query: 189 KLEIYRLPPVLIVLRNTTVQS---------------HRLTRGHDPFDLK----YSLYAIV 229
KL + R P +L++ N S RL+ G D Y LYA+
Sbjct: 260 KLTVQRFPRILVLHLNRFSASRGSIKKSSVGVDFPLQRLSLGDFASDKAGSPVYQLYALC 319
Query: 230 CHSGILGGGHYVSYALNPNGKWYAYNDSSCRQVSSGEMDTSCAYMLFYE 278
HSG + GHY + G W+ YNDS VS ++ +S Y+LFY+
Sbjct: 320 NHSGSVHYGHYTALCRCQTG-WHVYNDSRVSPVSENQVASSEGYVLFYQ 367
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 42/82 (51%), Gaps = 19/82 (23%)
Query: 217 DPFD-LKYSLYAIVCHSGILGGGHYVSYALNP--NGKWYAYND---SSCRQVSSGEMDT- 269
DP D Y L+A++ HSG GGHYV Y LNP +GKW ++D S C + + E +
Sbjct: 234 DPKDPANYILHAVLVHSGDNHGGHYVVY-LNPKGDGKWCKFDDDVVSRCTKEEAIEHNYG 292
Query: 270 -----------SCAYMLFYERK 280
+ AYML Y R+
Sbjct: 293 GHDDDLSVRHCTNAYMLVYIRE 314
>pdb|2F1Z|A Chain A, Crystal Structure Of Hausp
pdb|2F1Z|B Chain B, Crystal Structure Of Hausp
Length = 522
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 42/82 (51%), Gaps = 19/82 (23%)
Query: 217 DPFD-LKYSLYAIVCHSGILGGGHYVSYALNP--NGKWYAYND---SSCRQVSSGEMDT- 269
DP D Y L+A++ HSG GGHYV Y LNP +GKW ++D S C + + E +
Sbjct: 403 DPKDPANYILHAVLVHSGDNHGGHYVVY-LNPKGDGKWCKFDDDVVSRCTKEEAIEHNYG 461
Query: 270 -----------SCAYMLFYERK 280
+ AYML Y R+
Sbjct: 462 GHDDDLSVRHCTNAYMLVYIRE 483
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/43 (51%), Positives = 28/43 (65%), Gaps = 4/43 (9%)
Query: 217 DPFD-LKYSLYAIVCHSGILGGGHYVSYALNP--NGKWYAYND 256
DP D Y L+A++ HSG GGHYV Y LNP +GKW ++D
Sbjct: 234 DPKDPANYILHAVLVHSGDNHGGHYVVY-LNPKGDGKWCKFDD 275
>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 = 34.7 bits (78), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 8/63 (12%)
Query: 223 YSLYAIVCHSG-ILGGGHYVSYALNPNGKWYAYNDSSCRQVS-------SGEMDTSCAYM 274
Y L A++ H G GHYVS+ +W ++D V+ SG D AY+
Sbjct: 328 YDLQAVLTHQGRSSSSGHYVSWVKRKQDEWIKFDDDKVSIVTPEDILRLSGGGDWHIAYV 387
Query: 275 LFY 277
L Y
Sbjct: 388 LLY 390
>pdb|3OIF|A Chain A, Crystal Structure Of Enoyl-Acp Reductases I (Fabi) From B.
Subtilis (Complex With Nad And Tcl)
pdb|3OIF|B Chain B, Crystal Structure Of Enoyl-Acp Reductases I (Fabi) From B.
Subtilis (Complex With Nad And Tcl)
pdb|3OIF|C Chain C, Crystal Structure Of Enoyl-Acp Reductases I (Fabi) From B.
Subtilis (Complex With Nad And Tcl)
pdb|3OIF|D Chain D, Crystal Structure Of Enoyl-Acp Reductases I (Fabi) From B.
Subtilis (Complex With Nad And Tcl)
pdb|3OIG|A Chain A, Crystal Structure Of Enoyl-Acp Reductases I (Fabi) From B.
Subtilis (Complex With Nad And Inh)
Length = 266
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 5/66 (7%)
Query: 139 EHETCIASKREQTEPI-NLAYCLESFTKEEHLGENEKYYCPKCKTHQLASKKLEIYRLPP 197
E ETC AS +EQ I +A+C+ KEE +GE Y + L + + Y L
Sbjct: 73 EIETCFASIKEQVGVIHGIAHCIAFANKEELVGE----YLNTNRDGFLLAHNISSYSLTA 128
Query: 198 VLIVLR 203
V+ R
Sbjct: 129 VVKAAR 134
>pdb|3ZIM|A Chain A, Discovery Of A Potent And Isoform-selective Targeted
Covalent Inhibitor Of The Lipid Kinase Pi3kalpha
Length = 940
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 126 HLRYQ-SSLEKVFEEHETCIASKREQTEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQ 184
HL Q ++EK+ + K+++T+ + + + +E + + + + + P HQ
Sbjct: 595 HLNRQVEAMEKLINLTDILKQEKKDETQKVQMKFLVEQMRRPDFMDALQGFLSPLNPAHQ 654
Query: 185 LASKKLEIYRL 195
L + +LE R+
Sbjct: 655 LGNLRLEECRI 665
>pdb|3HHM|A Chain A, Crystal Structure Of P110alpha H1047r Mutant In Complex
With Nish2 Of P85alpha And The Drug Wortmannin
Length = 1091
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 126 HLRYQ-SSLEKVFEEHETCIASKREQTEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQ 184
HL Q ++EK+ + K+++T+ + + + +E + + + + + P HQ
Sbjct: 724 HLNRQVEAMEKLINLTDILKQEKKDETQKVQMKFLVEQMRRPDFMDALQGFLSPLNPAHQ 783
Query: 185 LASKKLEIYRL 195
L + +LE R+
Sbjct: 784 LGNLRLEECRI 794
>pdb|3HIZ|A Chain A, Crystal Structure Of P110alpha H1047r Mutant In Complex
With Nish2 Of P85alpha
Length = 1096
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 126 HLRYQ-SSLEKVFEEHETCIASKREQTEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQ 184
HL Q ++EK+ + K+++T+ + + + +E + + + + + P HQ
Sbjct: 729 HLNRQVEAMEKLINLTDILKQEKKDETQKVQMKFLVEQMRRPDFMDALQGFLSPLNPAHQ 788
Query: 185 LASKKLEIYRL 195
L + +LE R+
Sbjct: 789 LGNLRLEECRI 799
>pdb|3CHV|A Chain A, Crystal Structure Of A Prokaryotic Domain Of Unknown
Function (Duf849) Member (Spoa0042) From Silicibacter
Pomeroyi Dss-3 At 1.45 A Resolution
Length = 284
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 191 EIYRLPPVLIVLRNTTVQSHRLTRGHDPFDLKYSLYAIVCHS-GILGGGHYVSY 243
+Y PP L+ +S+R+T + FDL + L AI H G+L G YV +
Sbjct: 122 RVYENPPDLVDWLAAQXRSYRVTPEIEAFDLSHILRAIDXHGRGLLYGKLYVQF 175
>pdb|2RD0|A Chain A, Structure Of A Human P110alpha/p85alpha Complex
Length = 1096
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 126 HLRYQ-SSLEKVFEEHETCIASKREQTEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQ 184
HL Q ++EK+ + K+++T+ + + + +E + + + + + P HQ
Sbjct: 729 HLNRQVEAMEKLINLTDILKQEKKDETQKVQMKFLVEQMRRPDFMDALQGFLSPLNPAHQ 788
Query: 185 LASKKLEIYRL 195
L + +LE R+
Sbjct: 789 LGNLRLEECRI 799
>pdb|4A55|A Chain A, Crystal Structure Of P110alpha In Complex With Ish2 Of
P85alpha And The Inhibitor Pik-108
Length = 1096
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 126 HLRYQ-SSLEKVFEEHETCIASKREQTEPINLAYCLESFTKEEHLGENEKYYCPKCKTHQ 184
HL Q ++EK+ + K+++T+ + + + +E + + + + + P HQ
Sbjct: 729 HLNRQVEAMEKLINLTDILKQEKKDETQKVQMKFLVEQMRQPDFMDALQGFLSPLNPAHQ 788
Query: 185 LASKKLEIYRL 195
L + +LE R+
Sbjct: 789 LGNLRLEECRI 799
>pdb|1YVP|A Chain A, Ro Autoantigen Complexed With Rnas
pdb|1YVP|B Chain B, Ro Autoantigen Complexed With Rnas
pdb|1YVR|A Chain A, Ro Autoantigen
pdb|2I91|A Chain A, 60kda Ro Autoantigen In Complex With A Fragment Of
Misfolded Rna
pdb|2I91|B Chain B, 60kda Ro Autoantigen In Complex With A Fragment Of
Misfolded Rna
Length = 538
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 11 AHKYRPILFGIPVIVPCSDTTTQQDLYQAV 40
A K P LF + V CSD T+Q ++AV
Sbjct: 86 AAKQEPTLFALAVCSQCSDIKTKQAAFRAV 115
>pdb|3BYK|A Chain A, Crystal Structure Of B. Subtilis Levansucrase Mutant D247a
Length = 473
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 248 NGKWYAYNDSSCRQVSSGEMDTSCAYMLFYERKDLDLGAYLP 289
NGKWY + DS +++ + ++ YML Y L G Y P
Sbjct: 350 NGKWYLFTDSRGSKMTIDGITSNDIYMLGYVSNSL-TGPYKP 390
>pdb|3BYJ|A Chain A, Crystal Structure Of B. Subtilis Levansucrase Mutant D86a
Length = 473
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 248 NGKWYAYNDSSCRQVSSGEMDTSCAYMLFYERKDLDLGAYLP 289
NGKWY + DS +++ + ++ YML Y L G Y P
Sbjct: 350 NGKWYLFTDSRGSKMTIDGITSNDIYMLGYVSNSL-TGPYKP 390
>pdb|3BYL|A Chain A, Crystal Structure Of B. Subtilis Levansucrase Mutant E342a
pdb|3BYN|A Chain A, Crystal Structure Of B. Subtilis Levansucrase Mutant E342a
Bound To Raffinose
Length = 473
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 248 NGKWYAYNDSSCRQVSSGEMDTSCAYMLFYERKDLDLGAYLP 289
NGKWY + DS +++ + ++ YML Y L G Y P
Sbjct: 350 NGKWYLFTDSRGSKMTIDGITSNDIYMLGYVSNSL-TGPYKP 390
>pdb|2VDT|A Chain A, Crystallographic Structure Of Levansucrase From Bacillus
Subtilis Mutant S164a
Length = 439
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 248 NGKWYAYNDSSCRQVSSGEMDTSCAYMLFYERKDLDLGAYLP 289
NGKWY + DS +++ + ++ YML Y L G Y P
Sbjct: 317 NGKWYLFTDSRGSKMTIDGITSNDIYMLGYVSNSL-TGPYKP 357
>pdb|1PT2|A Chain A, Crystal Structure Of Levansucrase (E342a) Complexed With
Sucrose
Length = 447
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 248 NGKWYAYNDSSCRQVSSGEMDTSCAYMLFYERKDLDLGAYLP 289
NGKWY + DS +++ + ++ YML Y L G Y P
Sbjct: 324 NGKWYLFTDSRGSKMTIDGITSNDIYMLGYVSNSL-TGPYKP 364
>pdb|1OYG|A Chain A, Crystal Structure Of Bacillus Subtilis Levansucrase
Length = 447
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 248 NGKWYAYNDSSCRQVSSGEMDTSCAYMLFYERKDLDLGAYLP 289
NGKWY + DS +++ + ++ YML Y L G Y P
Sbjct: 324 NGKWYLFTDSRGSKMTIDGITSNDIYMLGYVSNSL-TGPYKP 364
>pdb|2L1A|A Chain A, Solution Nmr Structure Of The N-Terminal Gtpase-Like
Domain Of Dictyostelium Discoideum Fomin C
Length = 107
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 153 PINLAYCLESFTKEEHLGENEK-YYCPKCKTHQLASK 188
P LAY +SF E L E EK Y+ + K H +A +
Sbjct: 71 PFTLAYVEDSFLTPERLVEAEKSYFILRMKPHAIADR 107
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.135 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,230,887
Number of Sequences: 62578
Number of extensions: 427577
Number of successful extensions: 909
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 864
Number of HSP's gapped (non-prelim): 35
length of query: 321
length of database: 14,973,337
effective HSP length: 99
effective length of query: 222
effective length of database: 8,778,115
effective search space: 1948741530
effective search space used: 1948741530
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)