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= psy13857
(259 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 94.0 bits (232), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 56/157 (35%), Positives = 88/157 (56%), Gaps = 8/157 (5%)
Query: 100 HIYKRKEDHNRLSELKHLLSHKGMSLYADYDSKVKVLQELNYINSQGIVQLKGNIACEMG 159
H+ K+K + EL HL+S + +SL DY+ ++ VL++ +I+ V LKG +ACE+
Sbjct: 778 HVIKKK-----IEELYHLMSDQNLSLLPDYEKRLAVLKDTEFIDQNHNVLLKGRVACEIN 832
Query: 160 SKNELLITELLFQNKLVNFTPEEIAALLSCLVFQSKTT--TPTELPESLKQGMSIIADMN 217
S EL++TEL+ N L +F PEEI ALLS V++ KT P + L +G I ++
Sbjct: 833 SGYELVLTELILDNFLGSFEPEEIVALLSVFVYEGKTREEEPPIVTPRLAKGKQRIEEIY 892
Query: 218 IEVESIEKKHGVERDKSSEE-ADNLNFGLVQVVYEWA 253
++ + H + + E D F ++ VVYEWA
Sbjct: 893 KKMLCVFNTHQIPLTQDEAEFLDRKRFAMMNVVYEWA 929
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 77.0 bits (188), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 49/159 (30%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 97 KFYHIYKRKED-HNRLSELKHLLSH-KGMSLYADYDSKVKVLQELNYINSQGIVQLKGNI 154
+ Y Y RK D H + +LK +S + + D + +VL+ L + I++LKG +
Sbjct: 883 ELYGKYSRKHDLHEDMKQLKRKISESQAVIQLDDLRRRKRVLRRLGFCTPNDIIELKGRV 942
Query: 155 ACEMGSKNELLITELLFQNKLVNFTPEEIAALLSCLVFQSKTTTPTELPESLKQGMSIIA 214
ACE+ S +ELL+TEL+F PE+ AALLSC FQ + L L + + +
Sbjct: 943 ACEISSGDELLLTELIFNGNFNELKPEQAAALLSCFAFQERCKEAPRLKPELAEPLKAMR 1002
Query: 215 DMNIEVESIEKKHGVERDKSSEEADNLNFGLVQVVYEWA 253
++ ++ I K +E + ++ L++VVYEW
Sbjct: 1003 EIAAKIAKIMKDSKIEV-VEKDYVESFRHELMEVVYEWC 1040
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 77.0 bits (188), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 49/159 (30%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 97 KFYHIYKRKED-HNRLSELKHLLSH-KGMSLYADYDSKVKVLQELNYINSQGIVQLKGNI 154
+ Y Y RK D H + +LK +S + + D + +VL+ L + I++LKG +
Sbjct: 785 ELYGKYSRKHDLHEDMKQLKRKISESQAVIQLDDLRRRKRVLRRLGFCTPNDIIELKGRV 844
Query: 155 ACEMGSKNELLITELLFQNKLVNFTPEEIAALLSCLVFQSKTTTPTELPESLKQGMSIIA 214
ACE+ S +ELL+TEL+F PE+ AALLSC FQ + L L + + +
Sbjct: 845 ACEISSGDELLLTELIFNGNFNELKPEQAAALLSCFAFQERCKEAPRLKPELAEPLKAMR 904
Query: 215 DMNIEVESIEKKHGVERDKSSEEADNLNFGLVQVVYEWA 253
++ ++ I K +E + ++ L++VVYEW
Sbjct: 905 EIAAKIAKIMKDSKIEV-VEKDYVESFRHELMEVVYEWC 942
>pdb|3EIV|A Chain A, Crystal Structure Of Single-Stranded Dna-Binding Protein
From Streptomyces Coelicolor
pdb|3EIV|B Chain B, Crystal Structure Of Single-Stranded Dna-Binding Protein
From Streptomyces Coelicolor
pdb|3EIV|C Chain C, Crystal Structure Of Single-Stranded Dna-Binding Protein
From Streptomyces Coelicolor
pdb|3EIV|D Chain D, Crystal Structure Of Single-Stranded Dna-Binding Protein
From Streptomyces Coelicolor
Length = 199
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 186 LLSCLVFQSKTTTPTELPESLKQGMSIIADMNIEVESIEKKHGVER 231
L+C V++ + ESL++GM +I ++ S E + GV+R
Sbjct: 54 FLTCSVWRQAAEN---VAESLQRGMRVIVQGRLKQRSYEDREGVKR 96
>pdb|1M6I|A Chain A, Crystal Structure Of Apoptosis Inducing Factor (Aif)
Length = 493
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 37/149 (24%), Positives = 60/149 (40%), Gaps = 18/149 (12%)
Query: 127 ADYDSKVKVLQELNYINSQGIVQLKGNIACEMGSKNELLITEL--LFQNK---------- 174
D+ S K+ +E+ I G L +AC +G K L TE+ LF K
Sbjct: 168 GDFRSLEKISREVKSITIIGGGFLGSELACALGRKARALGTEVIQLFPEKGNMGKILPEY 227
Query: 175 LVNFTPEEI----AALLSCLVFQSKTTTPTELPESLKQGMSIIADMNIEVESIEKKHGVE 230
L N+T E++ ++ + QS + +L LK G + D + +E VE
Sbjct: 228 LSNWTMEKVRREGVKVMPNAIVQSVGVSSGKLLIKLKDGRKVETDHIVAAVGLEPN--VE 285
Query: 231 RDKSSEEADNLNFGLVQVVYEWAMQKPHW 259
K+ + +FG +V E + W
Sbjct: 286 LAKTGGLEIDSDFGGFRVNAELQARSNIW 314
>pdb|4FDC|B Chain B, Crystal Structure Of The E493v Mutant Of Human Apoptosis
Inducing Factor (Aif)
Length = 514
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 37/149 (24%), Positives = 60/149 (40%), Gaps = 18/149 (12%)
Query: 127 ADYDSKVKVLQELNYINSQGIVQLKGNIACEMGSKNELLITEL--LFQNK---------- 174
D+ S K+ +E+ I G L +AC +G K L TE+ LF K
Sbjct: 186 GDFRSLEKISREVKSITIIGGGFLGSELACALGRKARALGTEVIQLFPEKGNMGKILPEY 245
Query: 175 LVNFTPEEI----AALLSCLVFQSKTTTPTELPESLKQGMSIIADMNIEVESIEKKHGVE 230
L N+T E++ ++ + QS + +L LK G + D + +E VE
Sbjct: 246 LSNWTMEKVRREGVKVMPNAIVQSVGVSSGKLLIKLKDGRKVETDHIVAAVGLEPN--VE 303
Query: 231 RDKSSEEADNLNFGLVQVVYEWAMQKPHW 259
K+ + +FG +V E + W
Sbjct: 304 LAKTGGLEIDSDFGGFRVNAELQARSNIW 332
>pdb|1MMG|A Chain A, X-Ray Structures Of The Mgadp, Mgatpgammas, And Mgamppnp
Complexes Of The Dictyostelium Discoideum Myosin Motor
Domain
Length = 762
Score = 27.7 bits (60), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 28/122 (22%), Positives = 49/122 (40%), Gaps = 26/122 (21%)
Query: 137 QELNYINSQGIVQLKGNIACEMGSKNELLITELLFQNKLVNFTPEEIAALLSCLVFQSKT 196
+ NY+N G V +KG + ++E IT +V F+ EE ++ +
Sbjct: 302 ESFNYLNQSGCVDIKG-----VSDEDEFKITRQAMD--IVGFSQEEQMSIFKIIA----- 349
Query: 197 TTPTELPESLKQGMSIIADMNIEVESIEKKHGVERDKSSEEADNLNFGLVQVVYEWAMQK 256
I+ NI+ E + V +DK++ A + FG+ V E A+ +
Sbjct: 350 --------------GILHLGNIKFEKGAGEGAVLKDKTALNAASTVFGVNPSVLEKALME 395
Query: 257 PH 258
P
Sbjct: 396 PR 397
>pdb|1LVK|A Chain A, X-Ray Crystal Structure Of The Mg (Dot) 2'(3')-O-(N-
Methylanthraniloyl) Nucleotide Bound To Dictyostelium
Discoideum Myosin Motor Domain
Length = 762
Score = 27.7 bits (60), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 28/122 (22%), Positives = 49/122 (40%), Gaps = 26/122 (21%)
Query: 137 QELNYINSQGIVQLKGNIACEMGSKNELLITELLFQNKLVNFTPEEIAALLSCLVFQSKT 196
+ NY+N G V +KG + ++E IT +V F+ EE ++ +
Sbjct: 302 ESFNYLNQSGCVDIKG-----VSDEDEFKITRQAMD--IVGFSQEEQMSIFKIIA----- 349
Query: 197 TTPTELPESLKQGMSIIADMNIEVESIEKKHGVERDKSSEEADNLNFGLVQVVYEWAMQK 256
I+ NI+ E + V +DK++ A + FG+ V E A+ +
Sbjct: 350 --------------GILHLGNIKFEKGAGEGAVLKDKTALNAASTVFGVNPSVLEKALME 395
Query: 257 PH 258
P
Sbjct: 396 PR 397
>pdb|1MMD|A Chain A, Truncated Head Of Myosin From Dictyostelium Discoideum
Complexed With Mgadp-Bef3
pdb|1MND|A Chain A, Truncated Head Of Myosin From Dictyostelium Discoideum
Complexed With Mgadp-Alf4
pdb|1MNE|A Chain A, Truncated Head Of Myosin From Dictyostelium Discoideum
Complexed With Mg-Pyrophosphate
pdb|1VOM|A Chain A, Complex Between Dictyostelium Myosin And Mgadp And
Vanadate At 1.9a Resolution
Length = 762
Score = 27.7 bits (60), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 28/122 (22%), Positives = 49/122 (40%), Gaps = 26/122 (21%)
Query: 137 QELNYINSQGIVQLKGNIACEMGSKNELLITELLFQNKLVNFTPEEIAALLSCLVFQSKT 196
+ NY+N G V +KG + ++E IT +V F+ EE ++ +
Sbjct: 302 ESFNYLNQSGCVDIKG-----VSDEDEFKITRQAMD--IVGFSQEEQMSIFKIIA----- 349
Query: 197 TTPTELPESLKQGMSIIADMNIEVESIEKKHGVERDKSSEEADNLNFGLVQVVYEWAMQK 256
I+ NI+ E + V +DK++ A + FG+ V E A+ +
Sbjct: 350 --------------GILHLGNIKFEKGAGEGAVLKDKTALNAASTVFGVNPSVLEKALME 395
Query: 257 PH 258
P
Sbjct: 396 PR 397
>pdb|1G8X|A Chain A, Structure Of A Genetically Engineered Molecular Motor
pdb|1G8X|B Chain B, Structure Of A Genetically Engineered Molecular Motor
Length = 1010
Score = 27.3 bits (59), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 28/122 (22%), Positives = 49/122 (40%), Gaps = 26/122 (21%)
Query: 137 QELNYINSQGIVQLKGNIACEMGSKNELLITELLFQNKLVNFTPEEIAALLSCLVFQSKT 196
+ NY+N G V +KG + ++E IT +V F+ EE ++ +
Sbjct: 302 ESFNYLNQSGCVDIKG-----VSDEDEFKITRQAMD--IVGFSQEEQMSIFKIIA----- 349
Query: 197 TTPTELPESLKQGMSIIADMNIEVESIEKKHGVERDKSSEEADNLNFGLVQVVYEWAMQK 256
I+ NI+ E + V +DK++ A + FG+ V E A+ +
Sbjct: 350 --------------GILHLGNIKFEKGAGEGAVLKDKTALNAASTVFGVNPSVLEKALME 395
Query: 257 PH 258
P
Sbjct: 396 PR 397
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 0.133 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,576,821
Number of Sequences: 62578
Number of extensions: 291144
Number of successful extensions: 832
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 801
Number of HSP's gapped (non-prelim): 35
length of query: 259
length of database: 14,973,337
effective HSP length: 97
effective length of query: 162
effective length of database: 8,903,271
effective search space: 1442329902
effective search space used: 1442329902
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: 50 (23.9 bits)