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= 017840
(365 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 98.6 bits (244), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 43/79 (54%), Positives = 56/79 (70%)
Query: 253 TFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFE 312
TF+VLSYN L YAT + Y Y PSWALSW YRR L +I+ Y +D++CLQEV++ FE
Sbjct: 394 TFTVLSYNTLCQHYATPKMYRYTPSWALSWDYRRNKLKEQILSYDSDLLCLQEVESKTFE 453
Query: 313 EFFAPELDKHGYQALYKRK 331
E++ P LDKHGY ++ K
Sbjct: 454 EYWVPLLDKHGYTGIFHAK 472
>pdb|3NGQ|A Chain A, Crystal Structure Of The Human Cnot6l Nuclease Domain
Length = 398
Score = 90.1 bits (222), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 36/86 (41%), Positives = 56/86 (65%)
Query: 247 RISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEV 306
+I + +F+V+ YN+L D YAT + Y YCPSWAL+W YR++ ++ EI+ ADI+ LQEV
Sbjct: 25 QILPSASFTVMCYNVLCDKYATRQLYGYCPSWALNWEYRKKGIMEEIVNCDADIISLQEV 84
Query: 307 QNDHFEEFFAPELDKHGYQALYKRKT 332
+ + + F P L + GY + K+
Sbjct: 85 ETEQYFTLFLPALKERGYDGFFSPKS 110
>pdb|3NGN|A Chain A, Crystal Structure Of The Human Cnot6l Nuclease Domain In
Complex With Amp
pdb|3NGO|A Chain A, Crystal Structure Of The Human Cnot6l Nuclease Domain In
Complex With Poly(A) Dna
Length = 398
Score = 90.1 bits (222), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 36/86 (41%), Positives = 56/86 (65%)
Query: 247 RISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEV 306
+I + +F+V+ YN+L D YAT + Y YCPSWAL+W YR++ ++ EI+ ADI+ LQEV
Sbjct: 25 QILPSASFTVMCYNVLCDKYATRQLYGYCPSWALNWEYRKKGIMEEIVNCDADIISLQEV 84
Query: 307 QNDHFEEFFAPELDKHGYQALYKRKT 332
+ + + F P L + GY + K+
Sbjct: 85 ETEQYFTLFLPALKERGYDGFFSPKS 110
>pdb|2BIF|A Chain A, 6-Phosphofructo-2-KinaseFRUCTOSE-2,6-Bisphosphatase H256a
Mutant With F6p In Phosphatase Active Site
pdb|2BIF|B Chain B, 6-Phosphofructo-2-KinaseFRUCTOSE-2,6-Bisphosphatase H256a
Mutant With F6p In Phosphatase Active Site
Length = 469
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 34/145 (23%), Positives = 61/145 (42%), Gaps = 15/145 (10%)
Query: 224 SPRRLFPVNG--SDMNMMGHIDSDGRISSTG-TFSVLSYNILSD-------VYATSESYS 273
+PR ++ S++N+ G I D +S G FS +SD V+ + +
Sbjct: 248 TPRSIYLCRAGESELNLKGRIGGDPGLSPRGREFSKHLAQFISDQNIKDLKVFTSQMKRT 307
Query: 274 YCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTN 333
+ ALS Y + +L EI + + +E+Q+ + EF + DK+ Y R
Sbjct: 308 IQTAEALSVPYEQFKVLNEIDAGVCEEMTYEEIQDHYPLEFALRDQDKYRY-----RYPK 362
Query: 334 EVEFNKAAQSLTDAILPSAQKKNAL 358
+ Q L I+ +++N L
Sbjct: 363 GESYEDLVQRLEPVIMELERQENVL 387
>pdb|3BIF|A Chain A, 6-Phosphofructo-2-KinaseFRUCTOSE-2,6-Bisphosphatase Empty
6-Pf-2k Active Site
Length = 468
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 32/133 (24%), Positives = 56/133 (42%), Gaps = 13/133 (9%)
Query: 234 SDMNMMGHIDSDGRISSTG-TFSVLSYNILSD-------VYATSESYSYCPSWALSWAYR 285
S++N+ G I D +S G FS +SD V+ + + + ALS Y
Sbjct: 259 SELNLKGRIGGDPGLSPRGREFSKHLAQFISDQNIKDLKVFTSQMKRTIQTAEALSVPYE 318
Query: 286 RQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVEFNKAAQSLT 345
+ +L EI + + +E+Q+ + EF + DK+ Y R + Q L
Sbjct: 319 QFKVLNEIDAGVCEEMTYEEIQDHYPLEFALRDQDKYRY-----RYPKGESYEDLVQRLE 373
Query: 346 DAILPSAQKKNAL 358
I+ +++N L
Sbjct: 374 PVIMELERQENVL 386
>pdb|1BIF|A Chain A, 6-Phosphofructo-2-KinaseFRUCTOSE-2,6-Bisphosphatase
Bifunctional Enzyme Complexed With Atp-G-S And Phosphate
Length = 469
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 32/133 (24%), Positives = 56/133 (42%), Gaps = 13/133 (9%)
Query: 234 SDMNMMGHIDSDGRISSTG-TFSVLSYNILSD-------VYATSESYSYCPSWALSWAYR 285
S++N+ G I D +S G FS +SD V+ + + + ALS Y
Sbjct: 260 SELNLKGRIGGDPGLSPRGREFSKHLAQFISDQNIKDLKVFTSQMKRTIQTAEALSVPYE 319
Query: 286 RQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVEFNKAAQSLT 345
+ +L EI + + +E+Q+ + EF + DK+ Y R + Q L
Sbjct: 320 QFKVLNEIDAGVCEEMTYEEIQDHYPLEFALRDQDKYRY-----RYPKGESYEDLVQRLE 374
Query: 346 DAILPSAQKKNAL 358
I+ +++N L
Sbjct: 375 PVIMELERQENVL 387
>pdb|3G6S|A Chain A, Crystal Structure Of The
EndonucleaseEXONUCLEASEPHOSPHATASE (BVU_0621) FROM
Bacteroides Vulgatus. Northeast Structural Genomics
Consortium Target Bvr56d
Length = 267
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 281 SWAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFA--PELDKHG 323
+W YR+ + + I + DIV QEV ++ F++ A PE D G
Sbjct: 22 NWQYRKDRVCQFIKDHELDIVGXQEVLHNQFQDLRAGLPEYDGIG 66
>pdb|2AXN|A Chain A, Crystal Structure Of The Human Inducible Form 6-
Phosphofructo-2-KinaseFRUCTOSE-2,6-Bisphosphatase
pdb|2DWO|A Chain A, Pfkfb3 In Complex With Adp And Pep
pdb|2DWP|A Chain A, A Pseudo Substrate Complex Of 6-Phosphofructo-2-Kinase Of
Pfkfb
pdb|2I1V|B Chain B, Crystal Structure Of Pfkfb3 In Complex With Adp And
Fructose-2,6-Bisphosphate
pdb|3QPU|A Chain A, Pfkfb3 In Complex With Ppi
pdb|3QPV|A Chain A, Pfkfb3 Trapped In A Phospho-Enzyme Intermediate State
pdb|3QPW|A Chain A, Pfkfb3 In Complex With Aluminum Tetrafluoride
Length = 520
Score = 28.5 bits (62), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 33/133 (24%), Positives = 58/133 (43%), Gaps = 13/133 (9%)
Query: 234 SDMNMMGHIDSDGRISSTGT--FSVLSYNI----LSD--VYATSESYSYCPSWALSWAYR 285
++ N+ G I D +SS G S LS + L D V+ + + + AL Y
Sbjct: 257 NEHNLQGRIGGDSGLSSRGKKFASALSKFVEEQNLKDLRVWTSQLKSTIQTAEALRLPYE 316
Query: 286 RQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVEFNKAAQSLT 345
+ L EI + + +E+++ + EE+ E DK+ Y+ T E + Q L
Sbjct: 317 QWKALNEIDAGVCEELTYEEIRDTYPEEYALREQDKY----YYRYPTGE-SYQDLVQRLE 371
Query: 346 DAILPSAQKKNAL 358
I+ +++N L
Sbjct: 372 PVIMELERQENVL 384
>pdb|1TIP|A Chain A, The Bisphosphatase Domain Of The Bifunctional Rat Liver 6-
Phosphofructo-2-kinase/fructose-2,6-bisphosphatase
pdb|1TIP|B Chain B, The Bisphosphatase Domain Of The Bifunctional Rat Liver 6-
Phosphofructo-2-kinase/fructose-2,6-bisphosphatase
Length = 191
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 31/137 (22%), Positives = 51/137 (37%), Gaps = 21/137 (15%)
Query: 234 SDMNMMGHIDSDGRISSTGTFSVLSYNILSDVYATSESYSYCPSW------------ALS 281
S++N+ G I D +S+ G Y + S+ S W AL
Sbjct: 12 SELNLRGRIGGDSGLSARGK----QYAYALANFIRSQGISSLKVWTSHMKRTIQTAEALG 67
Query: 282 WAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVEFNKAA 341
Y + L EI + + +E+Q + EEF + DK+ Y R +
Sbjct: 68 VPYEQWKALNEIDAGVCEEMTYEEIQEHYPEEFALRDQDKYRY-----RYPKGESYEDLV 122
Query: 342 QSLTDAILPSAQKKNAL 358
Q L I+ +++N L
Sbjct: 123 QRLEPVIMELERQENVL 139
>pdb|1C7Z|A Chain A, Regulatory Complex Of Fructose-2,6-Bisphosphatase
pdb|1C7Z|B Chain B, Regulatory Complex Of Fructose-2,6-Bisphosphatase
pdb|1C80|A Chain A, Regulatory Complex Of Fructose-2,6-Bisphosphatase
pdb|1C80|B Chain B, Regulatory Complex Of Fructose-2,6-Bisphosphatase
pdb|1C81|A Chain A, Michaelis Complex Of Fructose-2,6-Bisphosphatase
Length = 191
Score = 28.1 bits (61), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 31/137 (22%), Positives = 51/137 (37%), Gaps = 21/137 (15%)
Query: 234 SDMNMMGHIDSDGRISSTGTFSVLSYNILSDVYATSESYSYCPSW------------ALS 281
S++N+ G I D +S+ G Y + S+ S W AL
Sbjct: 12 SELNLRGRIGGDSGLSARGK----QYAYALANFIRSQGISSLKVWTSHMKRTIQTAEALG 67
Query: 282 WAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVEFNKAA 341
Y + L EI + + +E+Q + EEF + DK+ Y R +
Sbjct: 68 VPYEQWKALNEIDAGVCEEMTYEEIQEHYPEEFALRDQDKYRY-----RYPKGESYEDLV 122
Query: 342 QSLTDAILPSAQKKNAL 358
Q L I+ +++N L
Sbjct: 123 QRLEPVIMELERQENVL 139
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 0.134 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,371,602
Number of Sequences: 62578
Number of extensions: 403503
Number of successful extensions: 874
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 871
Number of HSP's gapped (non-prelim): 12
length of query: 365
length of database: 14,973,337
effective HSP length: 100
effective length of query: 265
effective length of database: 8,715,537
effective search space: 2309617305
effective search space used: 2309617305
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: 52 (24.6 bits)