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= psy10717
(107 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3N3K|A Chain A, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 396
Score = 99.0 bits (245), Expect = 6e-22, Method: Composition-based stats.
Identities = 53/97 (54%), Positives = 75/97 (77%), Gaps = 3/97 (3%)
Query: 8 RFTSDG-WCRKKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAYC 66
RF+ DG W +K QT+VDFP++NL++S+Y + ++ +Y+L++VSNHYG ++ GHYTAYC
Sbjct: 299 RFSYDGRWKQKLQTSVDFPLENLDLSQYVIGPKNNLKKYNLFSVSNHYGGLDGGHYTAYC 358
Query: 67 RN--NYKWYKFDDSDVSEISASKVKSPAAYILFYMSF 101
+N +W+KFDD +VS+IS S VKS AAYILFY S
Sbjct: 359 KNAARQRWFKFDDHEVSDISVSSVKSSAAYILFYTSL 395
>pdb|2GFO|A Chain A, Structure Of The Catalytic Domain Of Human Ubiquitin
Carboxyl-terminal Hydrolase 8
Length = 396
Score = 99.0 bits (245), Expect = 6e-22, Method: Composition-based stats.
Identities = 53/97 (54%), Positives = 75/97 (77%), Gaps = 3/97 (3%)
Query: 8 RFTSDG-WCRKKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAYC 66
RF+ DG W +K QT+VDFP++NL++S+Y + ++ +Y+L++VSNHYG ++ GHYTAYC
Sbjct: 299 RFSYDGRWKQKLQTSVDFPLENLDLSQYVIGPKNNLKKYNLFSVSNHYGGLDGGHYTAYC 358
Query: 67 RN--NYKWYKFDDSDVSEISASKVKSPAAYILFYMSF 101
+N +W+KFDD +VS+IS S VKS AAYILFY S
Sbjct: 359 KNAARQRWFKFDDHEVSDISVSSVKSSAAYILFYTSL 395
>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 = 97.8 bits (242), Expect = 1e-21, Method: Composition-based stats.
Identities = 50/94 (53%), Positives = 63/94 (67%), Gaps = 3/94 (3%)
Query: 8 RFTSDGWCRKK-QTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAYC 66
RF+ + + R K T V+FP+ LNMSE+ N +R YDL AVSNHYG M GHYTAY
Sbjct: 262 RFSYNRYWRDKLDTVVEFPIRGLNMSEFVCNLSARPYVYDLIAVSNHYGAMGVGHYTAYA 321
Query: 67 RN--NYKWYKFDDSDVSEISASKVKSPAAYILFY 98
+N N KWY FDDS+VS S ++ + AAY+LFY
Sbjct: 322 KNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFY 355
>pdb|2IBI|A Chain A, Covalent Ubiquitin-Usp2 Complex
Length = 374
Score = 79.3 bits (194), Expect = 5e-16, Method: Composition-based stats.
Identities = 39/84 (46%), Positives = 59/84 (70%), Gaps = 3/84 (3%)
Query: 17 KKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAYCRN--NYKWYK 74
K T V+FP+ +L++ E+ + + V Y+LYAVSNH GT GHYTAYCR+ +W+
Sbjct: 283 KLTTFVNFPLRDLDLREFASENTNHAV-YNLYAVSNHSGTTMGGHYTAYCRSPGTGEWHT 341
Query: 75 FDDSDVSEISASKVKSPAAYILFY 98
F+DS V+ +S+S+V++ AY+LFY
Sbjct: 342 FNDSSVTPMSSSQVRTSDAYLLFY 365
>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 = 79.3 bits (194), Expect = 5e-16, Method: Composition-based stats.
Identities = 39/84 (46%), Positives = 59/84 (70%), Gaps = 3/84 (3%)
Query: 17 KKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAYCRN--NYKWYK 74
K T V+FP+ +L++ E+ + + V Y+LYAVSNH GT GHYTAYCR+ +W+
Sbjct: 276 KLTTFVNFPLRDLDLREFASENTNHAV-YNLYAVSNHSGTTMGGHYTAYCRSPGTGEWHT 334
Query: 75 FDDSDVSEISASKVKSPAAYILFY 98
F+DS V+ +S+S+V++ AY+LFY
Sbjct: 335 FNDSSVTPMSSSQVRTSDAYLLFY 358
>pdb|2HD5|A Chain A, Usp2 In Complex With Ubiquitin
Length = 359
Score = 79.0 bits (193), Expect = 7e-16, Method: Composition-based stats.
Identities = 39/84 (46%), Positives = 59/84 (70%), Gaps = 3/84 (3%)
Query: 17 KKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAYCRN--NYKWYK 74
K T V+FP+ +L++ E+ + + V Y+LYAVSNH GT GHYTAYCR+ +W+
Sbjct: 257 KLTTFVNFPLRDLDLREFASENTNHAV-YNLYAVSNHSGTTMGGHYTAYCRSPGTGEWHT 315
Query: 75 FDDSDVSEISASKVKSPAAYILFY 98
F+DS V+ +S+S+V++ AY+LFY
Sbjct: 316 FNDSSVTPMSSSQVRTSDAYLLFY 339
>pdb|3NHE|A Chain A, High Resolution Structure (1.26a) Of Usp2a In Complex With
Ubiquitin
Length = 348
Score = 78.6 bits (192), Expect = 9e-16, Method: Composition-based stats.
Identities = 39/84 (46%), Positives = 59/84 (70%), Gaps = 3/84 (3%)
Query: 17 KKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAYCRN--NYKWYK 74
K T V+FP+ +L++ E+ + + V Y+LYAVSNH GT GHYTAYCR+ +W+
Sbjct: 257 KLTTFVNFPLRDLDLREFASENTNHAV-YNLYAVSNHSGTTMGGHYTAYCRSPGTGEWHT 315
Query: 75 FDDSDVSEISASKVKSPAAYILFY 98
F+DS V+ +S+S+V++ AY+LFY
Sbjct: 316 FNDSSVTPMSSSQVRTSDAYLLFY 339
>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 = 77.8 bits (190), Expect = 2e-15, Method: Composition-based stats.
Identities = 37/93 (39%), Positives = 56/93 (60%), Gaps = 2/93 (2%)
Query: 7 HRFT-SDGWCRKKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAY 65
+RF+ S G +K VDFP+ L++ ++ + V Y LYA+ NH G++ GHYTA
Sbjct: 269 NRFSASRGSIKKSSVGVDFPLQRLSLGDFASDKAGSPV-YQLYALCNHSGSVHYGHYTAL 327
Query: 66 CRNNYKWYKFDDSDVSEISASKVKSPAAYILFY 98
CR W+ ++DS VS +S ++V S Y+LFY
Sbjct: 328 CRCQTGWHVYNDSRVSPVSENQVASSEGYVLFY 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 = 77.8 bits (190), Expect = 2e-15, Method: Composition-based stats.
Identities = 37/93 (39%), Positives = 56/93 (60%), Gaps = 2/93 (2%)
Query: 7 HRFT-SDGWCRKKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAY 65
+RF+ S G +K VDFP+ L++ ++ + V Y LYA+ NH G++ GHYTA
Sbjct: 275 NRFSASRGSIKKSSVGVDFPLQRLSLGDFASDKAGSPV-YQLYALCNHSGSVHYGHYTAL 333
Query: 66 CRNNYKWYKFDDSDVSEISASKVKSPAAYILFY 98
CR W+ ++DS VS +S ++V S Y+LFY
Sbjct: 334 CRCQTGWHVYNDSRVSPVSENQVASSEGYVLFY 366
>pdb|3I3T|A Chain A, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|C Chain C, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|E Chain E, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|G Chain G, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
Length = 355
Score = 77.8 bits (190), Expect = 2e-15, Method: Composition-based stats.
Identities = 37/93 (39%), Positives = 56/93 (60%), Gaps = 2/93 (2%)
Query: 7 HRFT-SDGWCRKKQTTVDFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAY 65
+RF+ S G +K VDFP+ L++ ++ + V Y LYA+ NH G++ GHYTA
Sbjct: 256 NRFSASRGSIKKSSVGVDFPLQRLSLGDFASDKAGSPV-YQLYALCNHSGSVHYGHYTAL 314
Query: 66 CRNNYKWYKFDDSDVSEISASKVKSPAAYILFY 98
CR W+ ++DS VS +S ++V S Y+LFY
Sbjct: 315 CRCQTGWHVYNDSRVSPVSENQVASSEGYVLFY 347
>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 = 62.8 bits (151), Expect = 5e-11, Method: Composition-based stats.
Identities = 36/97 (37%), Positives = 54/97 (55%), Gaps = 11/97 (11%)
Query: 12 DGWCRKKQTTVDFPVDNLNMSEY---------TVNSESRDVRYDLYAVSNHYGTMESGHY 62
+G RK ++FP LNM Y + N + D+ Y+L + +H GT+ GHY
Sbjct: 375 NGSNRKLDDFIEFPT-YLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVNEGHY 433
Query: 63 TAYCR-NNYKWYKFDDSDVSEISASKVKSPAAYILFY 98
A+C+ + +W+KF+DS VS IS +V AY+LFY
Sbjct: 434 IAFCKISGGQWFKFNDSMVSSISQEEVLKEQAYLLFY 470
>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 = 62.8 bits (151), Expect = 5e-11, Method: Composition-based stats.
Identities = 36/97 (37%), Positives = 54/97 (55%), Gaps = 11/97 (11%)
Query: 12 DGWCRKKQTTVDFPVDNLNMSEY---------TVNSESRDVRYDLYAVSNHYGTMESGHY 62
+G RK ++FP LNM Y + N + D+ Y+L + +H GT+ GHY
Sbjct: 375 NGSNRKLDDFIEFPT-YLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVNEGHY 433
Query: 63 TAYCR-NNYKWYKFDDSDVSEISASKVKSPAAYILFY 98
A+C+ + +W+KF+DS VS IS +V AY+LFY
Sbjct: 434 IAFCKISGGQWFKFNDSMVSSISQEEVLKEQAYLLFY 470
>pdb|3M99|A Chain A, Structure Of The Ubp8-Sgf11-Sgf73-Sus1 Saga Dub Module
Length = 471
Score = 62.4 bits (150), Expect = 6e-11, Method: Composition-based stats.
Identities = 36/97 (37%), Positives = 54/97 (55%), Gaps = 11/97 (11%)
Query: 12 DGWCRKKQTTVDFPVDNLNMSEY---------TVNSESRDVRYDLYAVSNHYGTMESGHY 62
+G RK ++FP LNM Y + N + D+ Y+L + +H GT+ GHY
Sbjct: 370 NGSNRKLDDFIEFPT-YLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVNEGHY 428
Query: 63 TAYCR-NNYKWYKFDDSDVSEISASKVKSPAAYILFY 98
A+C+ + +W+KF+DS VS IS +V AY+LFY
Sbjct: 429 IAFCKISGGQWFKFNDSMVSSISQEEVLKEQAYLLFY 465
>pdb|1VJV|A Chain A, Crystal Structure Of Ubiquitin Carboxyl-terminal Hydrolase
6 (yfr010w) From Saccharomyces Cerevisiae At 1.74 A
Resolution
Length = 415
Score = 43.1 bits (100), Expect = 4e-05, Method: Composition-based stats.
Identities = 28/68 (41%), Positives = 35/68 (51%), Gaps = 11/68 (16%)
Query: 45 YDLYAVSNHYGT-MESGHYTAYCRNNY---KWYKFDDSDVSEISASKVKSPA-------A 93
Y+L V H G ESGHY A+ R+ KWYKF+D VS + K++S A A
Sbjct: 346 YNLIGVITHQGANSESGHYQAFIRDELDENKWYKFNDDKVSVVEKEKIESLAGGGESDSA 405
Query: 94 YILFYMSF 101
IL Y F
Sbjct: 406 LILXYKGF 413
>pdb|2F1Z|A Chain A, Crystal Structure Of Hausp
pdb|2F1Z|B Chain B, Crystal Structure Of Hausp
Length = 522
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 4/69 (5%)
Query: 23 DFPVDNLNMSEYTVNSESRD-VRYDLYAVSNHYGTMESGHYTAYC--RNNYKWYKFDDSD 79
+FP + L + E+ ++ +D Y L+AV H G GHY Y + + KW KFDD
Sbjct: 388 EFP-EQLPLDEFLQKTDPKDPANYILHAVLVHSGDNHGGHYVVYLNPKGDGKWCKFDDDV 446
Query: 80 VSEISASKV 88
VS + +
Sbjct: 447 VSRCTKEEA 455
>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 = 37.0 bits (84), Expect = 0.003, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 34/65 (52%), Gaps = 4/65 (6%)
Query: 23 DFPVDNLNMSEYTVNSESRD-VRYDLYAVSNHYGTMESGHYTAYC--RNNYKWYKFDDSD 79
+FP + L + E+ ++ +D Y L+AV H G GHY Y + + KW KFDD
Sbjct: 219 EFP-EQLPLDEFLQKTDPKDPANYILHAVLVHSGDNHGGHYVVYLNPKGDGKWCKFDDDV 277
Query: 80 VSEIS 84
VS +
Sbjct: 278 VSRCT 282
>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 = 37.0 bits (84), Expect = 0.003, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 34/65 (52%), Gaps = 4/65 (6%)
Query: 23 DFPVDNLNMSEYTVNSESRD-VRYDLYAVSNHYGTMESGHYTAYC--RNNYKWYKFDDSD 79
+FP + L + E+ ++ +D Y L+AV H G GHY Y + + KW KFDD
Sbjct: 219 EFP-EQLPLDEFLQKTDPKDPANYILHAVLVHSGDNHGGHYVVYLNPKGDGKWCKFDDDV 277
Query: 80 VSEIS 84
VS +
Sbjct: 278 VSRCT 282
>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 = 37.0 bits (84), Expect = 0.003, Method: Composition-based stats.
Identities = 23/63 (36%), Positives = 32/63 (50%), Gaps = 9/63 (14%)
Query: 45 YDLYAVSNHYG-TMESGHYTAYC-RNNYKWYKFDDSDVSEISASKVKSPA-------AYI 95
YDL AV H G + SGHY ++ R +W KFDD VS ++ + + AY+
Sbjct: 328 YDLQAVLTHQGRSSSSGHYVSWVKRKQDEWIKFDDDKVSIVTPEDILRLSGGGDWHIAYV 387
Query: 96 LFY 98
L Y
Sbjct: 388 LLY 390
>pdb|3IHP|A Chain A, Covalent Ubiquitin-Usp5 Complex
pdb|3IHP|B Chain B, Covalent Ubiquitin-Usp5 Complex
Length = 854
Score = 33.5 bits (75), Expect = 0.034, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 44 RYDLYAVSNHYGTME-SGHYTAYCRNNYKWYKFDDSDVSEISASKVKSPAAYILFY 98
+Y L+A +H GT GHY + + +W ++D V ++ K YI FY
Sbjct: 796 KYQLFAFISHMGTSTMCGHYVCHIKKEGRWVIYNDQKVC--ASEKPPKDLGYIYFY 849
>pdb|3V5C|A Chain A, Crystal Structure Of The Mutant E234a Of Galacturonate
Dehydratase From Geobacillus Sp. Complexed With Mg
pdb|3V5C|B Chain B, Crystal Structure Of The Mutant E234a Of Galacturonate
Dehydratase From Geobacillus Sp. Complexed With Mg
pdb|3V5C|C Chain C, Crystal Structure Of The Mutant E234a Of Galacturonate
Dehydratase From Geobacillus Sp. Complexed With Mg
pdb|3V5C|D Chain D, Crystal Structure Of The Mutant E234a Of Galacturonate
Dehydratase From Geobacillus Sp. Complexed With Mg
pdb|3V5F|A Chain A, Crystal Structure Of The Mutant E234a Of Galacturonate
Dehydratase From Geobacillus Sp. Complexed With Mg
Length = 392
Score = 26.6 bits (57), Expect = 3.5, Method: Composition-based stats.
Identities = 13/48 (27%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 39 ESRDVRYDLYAVSNHYGTMESGHYTAYCRNNYKWYKFDDSDVSEISAS 86
++ +R + N YG SGH +A R N+++ ++DD + + S
Sbjct: 302 DAHGLRSAPHCYGNAYGIYASGHLSAAVR-NFEFVEYDDITIEGMDVS 348
>pdb|3P3B|A Chain A, Crystal Structure Of Galacturonate Dehydratase From
Geobacillus Sp. Complexed With D-Tartrate
pdb|3P3B|B Chain B, Crystal Structure Of Galacturonate Dehydratase From
Geobacillus Sp. Complexed With D-Tartrate
pdb|3QPE|A Chain A, Crystal Structure Of Galacturonate Dehydratase From
Geobacillus Sp. Complexed With D-Galacturonate And
5-Keto-4-Deoxy-D-Galacturonate
pdb|3QPE|B Chain B, Crystal Structure Of Galacturonate Dehydratase From
Geobacillus Sp. Complexed With D-Galacturonate And
5-Keto-4-Deoxy-D-Galacturonate
pdb|3QPE|C Chain C, Crystal Structure Of Galacturonate Dehydratase From
Geobacillus Sp. Complexed With D-Galacturonate And
5-Keto-4-Deoxy-D-Galacturonate
pdb|3QPE|D Chain D, Crystal Structure Of Galacturonate Dehydratase From
Geobacillus Sp. Complexed With D-Galacturonate And
5-Keto-4-Deoxy-D-Galacturonate
pdb|3VCC|A Chain A, Crystal Structure Of D-Galacturonate Dehydratase From
Geobacillus Sp. Complexed With Mg
pdb|3VCC|B Chain B, Crystal Structure Of D-Galacturonate Dehydratase From
Geobacillus Sp. Complexed With Mg
Length = 392
Score = 26.6 bits (57), Expect = 3.5, Method: Composition-based stats.
Identities = 13/48 (27%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 39 ESRDVRYDLYAVSNHYGTMESGHYTAYCRNNYKWYKFDDSDVSEISAS 86
++ +R + N YG SGH +A R N+++ ++DD + + S
Sbjct: 302 DAHGLRSAPHCYGNAYGIYASGHLSAAVR-NFEFVEYDDITIEGMDVS 348
>pdb|3N4F|A Chain A, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
pdb|3N4F|B Chain B, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
pdb|3N4F|C Chain C, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
pdb|3N4F|D Chain D, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
pdb|3OPS|A Chain A, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
Complexed With MagnesiumTARTRATE
pdb|3OPS|B Chain B, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
Complexed With MagnesiumTARTRATE
pdb|3OPS|C Chain C, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
Complexed With MagnesiumTARTRATE
pdb|3OPS|D Chain D, Crystal Structure Of Mandelate RacemaseMUCONATE
LACTONIZING PROTEIN From Geobacillus Sp. Y412mc10
Complexed With MagnesiumTARTRATE
Length = 392
Score = 26.2 bits (56), Expect = 5.4, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 8/61 (13%)
Query: 39 ESRDVRYDLYAVSNHYGTMESGHYTAYCRNNYKWYKFDD-----SDVS--EISASKVKSP 91
++ +R + N YG SGH +A R N+++ ++DD DVS I ++ P
Sbjct: 302 DAHGLRSAPHCYGNAYGIYASGHLSAAVR-NFEFVEYDDITIEGXDVSGYRIENGEIHVP 360
Query: 92 A 92
A
Sbjct: 361 A 361
>pdb|2VDT|A Chain A, Crystallographic Structure Of Levansucrase From Bacillus
Subtilis Mutant S164a
Length = 439
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 69 NYKWYKFDDSDVSEISASKVKSPAAYILFYMS 100
N KWY F DS S+++ + S Y+L Y+S
Sbjct: 317 NGKWYLFTDSRGSKMTIDGITSNDIYMLGYVS 348
>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 = 25.8 bits (55), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 69 NYKWYKFDDSDVSEISASKVKSPAAYILFYMS 100
N KWY F DS S+++ + S Y+L Y+S
Sbjct: 350 NGKWYLFTDSRGSKMTIDGITSNDIYMLGYVS 381
>pdb|1OYG|A Chain A, Crystal Structure Of Bacillus Subtilis Levansucrase
Length = 447
Score = 25.8 bits (55), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 69 NYKWYKFDDSDVSEISASKVKSPAAYILFYMS 100
N KWY F DS S+++ + S Y+L Y+S
Sbjct: 324 NGKWYLFTDSRGSKMTIDGITSNDIYMLGYVS 355
>pdb|3BYK|A Chain A, Crystal Structure Of B. Subtilis Levansucrase Mutant D247a
Length = 473
Score = 25.8 bits (55), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 69 NYKWYKFDDSDVSEISASKVKSPAAYILFYMS 100
N KWY F DS S+++ + S Y+L Y+S
Sbjct: 350 NGKWYLFTDSRGSKMTIDGITSNDIYMLGYVS 381
>pdb|3BYJ|A Chain A, Crystal Structure Of B. Subtilis Levansucrase Mutant D86a
Length = 473
Score = 25.8 bits (55), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 69 NYKWYKFDDSDVSEISASKVKSPAAYILFYMS 100
N KWY F DS S+++ + S Y+L Y+S
Sbjct: 350 NGKWYLFTDSRGSKMTIDGITSNDIYMLGYVS 381
>pdb|3PQV|A Chain A, Cyclase Homolog
pdb|3PQV|B Chain B, Cyclase Homolog
pdb|3PQV|C Chain C, Cyclase Homolog
pdb|3PQV|D Chain D, Cyclase Homolog
Length = 365
Score = 25.8 bits (55), Expect = 6.6, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 20/47 (42%)
Query: 23 DFPVDNLNMSEYTVNSESRDVRYDLYAVSNHYGTMESGHYTAYCRNN 69
D+ V L + E N S ++ Y V G + G YT C N+
Sbjct: 47 DYEVSFLRLMEAVTNGSSIEISYTGTTVIFRPGIITGGSYTHQCPNS 93
>pdb|1PT2|A Chain A, Crystal Structure Of Levansucrase (E342a) Complexed With
Sucrose
Length = 447
Score = 25.8 bits (55), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 69 NYKWYKFDDSDVSEISASKVKSPAAYILFYMS 100
N KWY F DS S+++ + S Y+L Y+S
Sbjct: 324 NGKWYLFTDSRGSKMTIDGITSNDIYMLGYVS 355
>pdb|3LPZ|A Chain A, Crystal Structure Of C. Therm. Get4
Length = 336
Score = 25.0 bits (53), Expect = 9.6, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 4/42 (9%)
Query: 55 GTMESGHYTAYCRNNYKWYKFDDSDVSEISASKVKSPAAYIL 96
GT ES A R Y+WYK D+S + + ++ P Y+L
Sbjct: 162 GTKESPEVLA--RMEYEWYKQDESHTAPLYCARAVLP--YLL 199
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
0.319 0.133 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,287,986
Number of Sequences: 62578
Number of extensions: 120416
Number of successful extensions: 277
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 233
Number of HSP's gapped (non-prelim): 42
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
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: 45 (21.9 bits)