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= psy15261
(292 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 99.8 bits (247), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 56/137 (40%), Positives = 79/137 (57%), Gaps = 4/137 (2%)
Query: 81 HRALIFCQLRAMLDIVENDLFKCEMPGVTYLRLDGSVVSTARHAIVTKFNSDPTID-VXX 139
HR LIF Q+ MLDI+ + L + G+ + RLDG+V S R + FNS + D V
Sbjct: 573 HRVLIFSQMVRMLDILGDYL---SIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFL 629
Query: 140 XXXXXXXXXXXXXXADTVIFVDHDWSPMKDLQAMDRAHRIGQKKVVNVYRLITKNTLEEK 199
ADTV+ D DW+P DLQAM RAHRIGQK V VYRL++K+T+EE+
Sbjct: 630 LSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEE 689
Query: 200 IMNLQKFKLLTANTVIN 216
++ + K++ +I+
Sbjct: 690 VLERARKKMILEYAIIS 706
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 75.5 bits (184), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 61/234 (26%), Positives = 95/234 (40%), Gaps = 21/234 (8%)
Query: 6 QSVCNHPKLVLGPSHAQYEALVSRPGLNLSDIRHAAKLPALKQLLMDCGIGASPGMSGSG 65
+ +CNHP L+ E L+L ++ K P +SG
Sbjct: 357 KKLCNHPALIYEKCLTGEEGFDG--ALDLFPQNYSTK-------------AVEPQLSGKM 401
Query: 66 PHYDPGAPPPSILTQHRALIFCQLRAMLDIVENDLFKCEMPGVTYLRLDGSVVSTARHAI 125
D T + ++ LD+ E C Y+RLDG++ R I
Sbjct: 402 LVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEK---LCRNRRYLYVRLDGTMSIKKRAKI 458
Query: 126 VTKFN--SDPTIDVXXXXXXXXXXXXXXXXADTVIFVDHDWSPMKDLQAMDRAHRIGQKK 183
V +FN S P + A+ ++ D DW+P D QAM R R GQKK
Sbjct: 459 VERFNNPSSPEF-IFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKK 517
Query: 184 VVNVYRLITKNTLEEKIMNLQKFKLLTANTVINSENRNLDTMATGKILDLFCLD 237
+YRL++ T+EEKI+ Q K ++ V++ E + G++ +LF L+
Sbjct: 518 TCYIYRLLSTGTIEEKILQRQAHKKALSSCVVDEEQDVERHFSLGELRELFSLN 571
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 65.5 bits (158), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 45/143 (31%), Positives = 69/143 (48%), Gaps = 2/143 (1%)
Query: 85 IFCQLRAMLDIVENDLFKCEMPGVTYLRLDGSVVSTARHAIVTKFNSDPTIDVXXXXXXX 144
IF Q M I+ N + K V +L G + R I++KF ++P++
Sbjct: 117 IFTQFVDMGKIIRNIIEKELNTEVPFLY--GELSKKERDDIISKFQNNPSVKFIVLSVKA 174
Query: 145 XXXXXXXXXADTVIFVDHDWSPMKDLQAMDRAHRIGQKKVVNVYRLITKNTLEEKIMNLQ 204
A+ VI D W+P + QA DR +RIGQ + V V++LI+ TLEEKI L
Sbjct: 175 GGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLL 234
Query: 205 KFKLLTANTVINSENRNLDTMAT 227
FK +I+S + + ++T
Sbjct: 235 AFKRSLFKDIISSGDSWITELST 257
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 65.5 bits (158), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 45/146 (30%), Positives = 71/146 (48%), Gaps = 2/146 (1%)
Query: 85 IFCQLRAMLDIVENDLFKCEMPGVTYLRLDGSVVSTARHAIVTKFNSDPTIDVXXXXXXX 144
IF Q M I+ N + K V +L G + R I++KF ++P++
Sbjct: 346 IFTQFVDMGKIIRNIIEKELNTEVPFLY--GELSKKERDDIISKFQNNPSVKFIVLSVKA 403
Query: 145 XXXXXXXXXADTVIFVDHDWSPMKDLQAMDRAHRIGQKKVVNVYRLITKNTLEEKIMNLQ 204
A+ VI D W+P + QA DR +RIGQ + V V++LI+ TLEEKI L
Sbjct: 404 GGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLL 463
Query: 205 KFKLLTANTVINSENRNLDTMATGKI 230
FK +I+S + + ++T ++
Sbjct: 464 AFKRSLFKDIISSGDSWITELSTEEL 489
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
Length = 500
Score = 64.3 bits (155), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 45/150 (30%), Positives = 74/150 (49%), Gaps = 10/150 (6%)
Query: 85 IFCQL----RAMLDIVENDLFKCEMPGVTYLRLDGSVVSTARHAIVTKFNSDPTIDVXXX 140
IF Q + + +I+E +L E+P L G + R I++KF ++P++
Sbjct: 346 IFTQFVDXGKIIRNIIEKEL-NTEVPF-----LYGELSKKERDDIISKFQNNPSVKFIVL 399
Query: 141 XXXXXXXXXXXXXADTVIFVDHDWSPMKDLQAMDRAHRIGQKKVVNVYRLITKNTLEEKI 200
A+ VI D W+P + QA DR +RIGQ + V V++LI+ TLEEKI
Sbjct: 400 SVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKI 459
Query: 201 MNLQKFKLLTANTVINSENRNLDTMATGKI 230
L FK +I+S + + ++T ++
Sbjct: 460 DQLLAFKRSLFKDIISSGDSWITELSTEEL 489
>pdb|1JR6|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
pdb|1ONB|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
Length = 142
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 32/79 (40%), Gaps = 9/79 (11%)
Query: 62 SGSGPHYDPGAPPPSILTQHRALIFCQLRAMLDIVENDLFKCEMPGVTYLR--------L 113
+G P Y A P ++ R LIFC + D + L + V Y R
Sbjct: 22 TGEIPFYGK-AIPLEVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYYRGLDVSVIPT 80
Query: 114 DGSVVSTARHAIVTKFNSD 132
+G VV A A++T F D
Sbjct: 81 NGDVVVVATDALMTGFTGD 99
>pdb|2ZYK|A Chain A, Crystal Structure Of CycloMALTODEXTRIN-Binding Protein
Complexed With Gamma-Cyclodextrin
pdb|2ZYK|B Chain B, Crystal Structure Of CycloMALTODEXTRIN-Binding Protein
Complexed With Gamma-Cyclodextrin
pdb|2ZYK|C Chain C, Crystal Structure Of CycloMALTODEXTRIN-Binding Protein
Complexed With Gamma-Cyclodextrin
pdb|2ZYK|D Chain D, Crystal Structure Of CycloMALTODEXTRIN-Binding Protein
Complexed With Gamma-Cyclodextrin
pdb|2ZYM|A Chain A, Crystal Structure Of CycloMALTODEXTRIN-Binding Protein
Complexed With Alpha-Cyclodextrin
pdb|2ZYN|A Chain A, Crystal Structure Of CycloMALTODEXTRIN-Binding Protein
Complexed With Beta-Cyclodextrin
pdb|2ZYO|A Chain A, Crystal Structure Of CycloMALTODEXTRIN-Binding Protein
Complexed With Maltotetraose
Length = 397
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 32/76 (42%), Gaps = 9/76 (11%)
Query: 4 YLQSVCNHPKLV--LGPSHAQYEALVSRPGLNLSDIRHAAKLPALKQLLMDCGIGASPGM 61
YL + +PK L EAL SR + ++P K+LL D I +P +
Sbjct: 285 YLSAYSKYPKYATELMQFLTSKEALASR-------FKETGEIPPQKELLNDPMIKNNPVV 337
Query: 62 SGSGPHYDPGAPPPSI 77
+G G P PSI
Sbjct: 338 NGFAKQASKGVPMPSI 353
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
0.318 0.135 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,717,056
Number of Sequences: 62578
Number of extensions: 283795
Number of successful extensions: 522
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 513
Number of HSP's gapped (non-prelim): 10
length of query: 292
length of database: 14,973,337
effective HSP length: 98
effective length of query: 194
effective length of database: 8,840,693
effective search space: 1715094442
effective search space used: 1715094442
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: 51 (24.3 bits)