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= psy1090
(169 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 72.4 bits (176), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 45/158 (28%), Positives = 78/158 (49%), Gaps = 27/158 (17%)
Query: 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGN 64
+ D K+ + IA F +E L P+L++CPLSVL NWE E KFAP +R ++
Sbjct: 61 LADDMGLGKTLQTIAVFSDAKKENELTPSLVICPLSVLKNWEEELSKFAPHLRFAVFH-- 118
Query: 65 AIERKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCI 124
+ + +I L+ I++TT ++ D LK++ W I
Sbjct: 119 ------------------------EDRSKIKLEDYDIILTTYAVLLRD-TRLKEVEWKYI 153
Query: 125 IVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYPNK 162
++DE ++KN ++K+ + L++ +++ LTG NK
Sbjct: 154 VIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENK 191
>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 = 72.4 bits (176), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 45/158 (28%), Positives = 78/158 (49%), Gaps = 27/158 (17%)
Query: 5 IPDPTRYRKSGKVIAFFCKIIEEQALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYYGN 64
+ D K+ + IA F +E L P+L++CPLSVL NWE E KFAP +R ++
Sbjct: 61 LADDXGLGKTLQTIAVFSDAKKENELTPSLVICPLSVLKNWEEELSKFAPHLRFAVFH-- 118
Query: 65 AIERKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWNCI 124
+ + +I L+ I++TT ++ D LK++ W I
Sbjct: 119 ------------------------EDRSKIKLEDYDIILTTYAVLLRD-TRLKEVEWKYI 153
Query: 125 IVDEGHSVKNKKSKLSIKLTALRATFKVLLTGWYYPNK 162
++DE ++KN ++K+ + L++ +++ LTG NK
Sbjct: 154 VIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENK 191
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 64.3 bits (155), Expect = 3e-11, Method: Composition-based stats.
Identities = 44/154 (28%), Positives = 72/154 (46%), Gaps = 10/154 (6%)
Query: 4 VIPDPTRYRKSGKVIAFFCKII-EEQALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYY 62
++ D K+ + +AF +I + P++IV PLS + W F K+AP + + Y
Sbjct: 259 ILADEMGLGKTVQTVAFISWLIFARRQNGPHIIVVPLSTMPAWLDTFEKWAPDLNCICYM 318
Query: 63 GNAIERKALQSEALSLPTIKVPAKKGKTKKQISLKLPLILVTTPQIIENDFGFLKKITWN 122
GN R ++ P KGK + + +L+TT + I D L I W
Sbjct: 319 GNQKSRDTIREYEFYTN----PRAKGKKTMKFN-----VLLTTYEYILKDRAELGSIKWQ 369
Query: 123 CIIVDEGHSVKNKKSKLSIKLTALRATFKVLLTG 156
+ VDE H +KN +S L L + + ++L+TG
Sbjct: 370 FMAVDEAHRLKNAESSLYESLNSFKVANRMLITG 403
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 33.5 bits (75), Expect = 0.054, Method: Composition-based stats.
Identities = 28/124 (22%), Positives = 56/124 (45%), Gaps = 14/124 (11%)
Query: 34 LIVCPLSVLNNWEAEFRKFAPFVRTVKYYGNAIERKALQSEALSLPTIKVPAKKGKTKKQ 93
++V P S++ NW E K + G ++ A+ + ++ +K Q
Sbjct: 118 IVVSPSSLVRNWYNEVGK---------WLGGRVQPVAIDGGSKD----EIDSKLVNFISQ 164
Query: 94 ISLKLPL-ILVTTPQIIENDFGFLKKITWNCIIVDEGHSVKNKKSKLSIKLTALRATFKV 152
+++P IL+ + + L K +I DEGH +KN ++ + L ++ A +V
Sbjct: 165 QGMRIPTPILIISYETFRLHAEVLHKGKVGLVICDEGHRLKNSDNQTYLALNSMNAQRRV 224
Query: 153 LLTG 156
L++G
Sbjct: 225 LISG 228
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 101 ILVTTPQIIENDF--GFLKKITWNCIIVDEGH 130
++V TPQ IEND G + + I+ DE H
Sbjct: 104 VIVATPQTIENDLLAGRISLEDVSLIVFDEAH 135
>pdb|1NKT|A Chain A, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis Complex With Adpbs
pdb|1NKT|B Chain B, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis Complex With Adpbs
pdb|1NL3|A Chain A, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis In Apo Form
pdb|1NL3|B Chain B, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis In Apo Form
Length = 922
Score = 27.3 bits (59), Expect = 4.0, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 20/39 (51%)
Query: 24 IIEEQALEPNLIVCPLSVLNNWEAEFRKFAPFVRTVKYY 62
I+ ++A P +I P +NW EF + AP + +Y
Sbjct: 243 ILIDEARTPLIISGPADGASNWYTEFARLAPLMEKDVHY 281
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 27.3 bits (59), Expect = 4.7, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 8/59 (13%)
Query: 101 ILVTTPQ----IIENDFGFLKKITWNCIIVDEGHSVKNKK--SKLSIKLTALRATFKVL 153
I+VTT + +I N ++K ++ C++VDE H + ++K + L I +T +R K L
Sbjct: 117 IIVTTSEKADSLIRNRASWIKAVS--CLVVDEIHLLDSEKRGATLEILVTKMRRMNKAL 173
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
0.321 0.136 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,000,745
Number of Sequences: 62578
Number of extensions: 178862
Number of successful extensions: 396
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 388
Number of HSP's gapped (non-prelim): 14
length of query: 169
length of database: 14,973,337
effective HSP length: 92
effective length of query: 77
effective length of database: 9,216,161
effective search space: 709644397
effective search space used: 709644397
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: 48 (23.1 bits)