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= 004604
(743 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 = 98.2 bits (243), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 65/178 (36%), Positives = 97/178 (54%), Gaps = 7/178 (3%)
Query: 507 LAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKY 566
L +V W +V+DEAQ IKN +T++ +A L++K R L+GTPI+N +DDL+S FL
Sbjct: 145 LKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIMTFLNP 204
Query: 567 DPYAVYKSFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISL 626
Y F S PI + ++L+A++ +LRRTK D I +LP K +
Sbjct: 205 GLLGSYSEFKSKFATPIKKGDNMAKEELKAIISPFILRRTK---YDKAIINDLPDKIETN 261
Query: 627 TKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVK 684
+ + E+ A YK E ++L F D+ T + IL LL+L+Q DHP L+K
Sbjct: 262 VYCNLTPEQAAMYKA-EVENL--FNNI-DSVTGIKRKGMILSTLLKLKQIVDHPALLK 315
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 44/84 (52%), Gaps = 11/84 (13%)
Query: 387 TLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIV--- 443
+LV+CP SVL+ W EL P L ++H + ++L YD++LTTY+++
Sbjct: 89 SLVICPLSVLKNWEEELSKFAPH---LRFAVFH---EDRSKIKLEDYDIILTTYAVLLRD 142
Query: 444 --TNEVPKQPSVDEEEADEKNGET 465
EV + V +E + KN +T
Sbjct: 143 TRLKEVEWKYIVIDEAQNIKNPQT 166
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 28/48 (58%), Gaps = 7/48 (14%)
Query: 271 LSVNLLKHQKIALAWMLQKETRSLHCLG-GI-LADDQGLGKTISIIAL 316
+ NL +Q +WM R ++ LG GI LADD GLGKT+ IA+
Sbjct: 34 IKANLRPYQIKGFSWM-----RFMNKLGFGICLADDMGLGKTLQTIAV 76
>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 = 97.4 bits (241), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 65/178 (36%), Positives = 97/178 (54%), Gaps = 7/178 (3%)
Query: 507 LAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKY 566
L +V W +V+DEAQ IKN +T++ +A L++K R L+GTPI+N +DDL+S FL
Sbjct: 145 LKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIXTFLNP 204
Query: 567 DPYAVYKSFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISL 626
Y F S PI + ++L+A++ +LRRTK D I +LP K +
Sbjct: 205 GLLGSYSEFKSKFATPIKKGDNXAKEELKAIISPFILRRTK---YDKAIINDLPDKIETN 261
Query: 627 TKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVK 684
+ + E+ A YK E ++L F D+ T + IL LL+L+Q DHP L+K
Sbjct: 262 VYCNLTPEQAAXYKA-EVENL--FNNI-DSVTGIKRKGXILSTLLKLKQIVDHPALLK 315
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 44/84 (52%), Gaps = 11/84 (13%)
Query: 387 TLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIV--- 443
+LV+CP SVL+ W EL P L ++H + ++L YD++LTTY+++
Sbjct: 89 SLVICPLSVLKNWEEELSKFAPH---LRFAVFH---EDRSKIKLEDYDIILTTYAVLLRD 142
Query: 444 --TNEVPKQPSVDEEEADEKNGET 465
EV + V +E + KN +T
Sbjct: 143 TRLKEVEWKYIVIDEAQNIKNPQT 166
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 41/176 (23%), Positives = 80/176 (45%), Gaps = 13/176 (7%)
Query: 507 LAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKY 566
L + W + +DEA +KN + + + S + R ++GTP+QN+I +L + FL
Sbjct: 363 LGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITGTPLQNNIKELAALVNFLMP 422
Query: 567 DPYAVYKSFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISL 626
+ + + + +H L ++ +LRR K +LP KT +
Sbjct: 423 GRFTIDQEIDFENQDEEQEEYIH---DLHRRIQPFILRRLKKDVEK-----SLPSKTERI 474
Query: 627 TKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLL 682
+V+ S + +YK + + + A A G + ++L ++ L++A +HP L
Sbjct: 475 LRVELSDVQTEYYKNILTKNYSALTAGAKGG-----HFSLLNIMNELKKASNHPYL 525
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 298 GGILADDQGLGKTISIIALI 317
GILAD+ GLGKT+ +A I
Sbjct: 257 NGILADEMGLGKTVQTVAFI 276
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 49.3 bits (116), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 55/121 (45%), Gaps = 14/121 (11%)
Query: 508 AKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYD 567
KVG V+ DE +KN Q A S+ A+RR +SGTPIQN + + +S F+
Sbjct: 191 GKVGL--VICDEGHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSG 248
Query: 568 PYAVYKSFYSTIKIPI---------SRNSLHGYKKLQAVLRAI---MLRRTKGTFIDGQP 615
+ F +IPI ++ G +KLQ ++ + ++RRT P
Sbjct: 249 ILGTAQEFKKRFEIPILKGRDADASDKDRAAGEQKLQELISIVNRCLIRRTSDILSKYLP 308
Query: 616 I 616
+
Sbjct: 309 V 309
Score = 33.1 bits (74), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 268 DGLLSVNLLKHQK--IALAWMLQKETRSLHCLGGILADDQGLGKTISIIALI 317
D +LS L HQ+ + W R + G I+AD+ GLGKT+ I LI
Sbjct: 49 DPVLSKVLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLI 100
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
0.316 0.132 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,024,128
Number of Sequences: 62578
Number of extensions: 726931
Number of successful extensions: 1408
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1392
Number of HSP's gapped (non-prelim): 11
length of query: 743
length of database: 14,973,337
effective HSP length: 106
effective length of query: 637
effective length of database: 8,340,069
effective search space: 5312623953
effective search space used: 5312623953
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: 55 (25.8 bits)