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= psy13032
(190 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 = 79.7 bits (195), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 47/165 (28%), Positives = 82/165 (49%), Gaps = 17/165 (10%)
Query: 2 ERFVPDFKVVPYWGSPQERKILRQFWDMKNLHTKDAS---FHVVITSYQLVVSDFKYFNR 58
E++ PD + Y G+ + R +R++ N K F+V++T+Y+ ++ D
Sbjct: 306 EKWAPDLNCICYMGNQKSRDTIREYEFYTNPRAKGKKTMKFNVLLTTYEYILKDRAELGS 365
Query: 59 IKWQYLILDEAQAIVDINVYSYLNDIEREQSMRWKLLLGFSCRNRLLLSGTPIQNSMAEL 118
IKWQ++ +DEA + + +S ++ L F NR+L++GTP+QN++ EL
Sbjct: 366 IKWQFMAVDEAHRL------------KNAESSLYESLNSFKVANRMLITGTPLQNNIKEL 413
Query: 119 WALLHFIMPSMFDSHDEFNEWFSKDIESHAENKTSIDEREYPIVL 163
AL++F+MP F E + F E E + R P +L
Sbjct: 414 AALVNFLMPGRFTIDQEID--FENQDEEQEEYIHDLHRRIQPFIL 456
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 63.2 bits (152), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 62/107 (57%), Gaps = 13/107 (12%)
Query: 39 FHVVITSYQLVVSDFKYFNRIKWQYLILDEAQAIVDINVYSYLNDIEREQSMRWKLLLGF 98
+ +++T+Y +++ D + ++W+Y+++DEAQ +I+ Q+ +K +
Sbjct: 129 YDIILTTYAVLLRDTR-LKEVEWKYIVIDEAQ------------NIKNPQTKIFKAVKEL 175
Query: 99 SCRNRLLLSGTPIQNSMAELWALLHFIMPSMFDSHDEFNEWFSKDIE 145
+ R+ L+GTPI+N + +LW+++ F+ P + S+ EF F+ I+
Sbjct: 176 KSKYRIALTGTPIENKVDDLWSIMTFLNPGLLGSYSEFKSKFATPIK 222
>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 = 62.4 bits (150), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 61/107 (57%), Gaps = 13/107 (12%)
Query: 39 FHVVITSYQLVVSDFKYFNRIKWQYLILDEAQAIVDINVYSYLNDIEREQSMRWKLLLGF 98
+ +++T+Y +++ D + ++W+Y+++DEAQ +I+ Q+ +K +
Sbjct: 129 YDIILTTYAVLLRDTR-LKEVEWKYIVIDEAQ------------NIKNPQTKIFKAVKEL 175
Query: 99 SCRNRLLLSGTPIQNSMAELWALLHFIMPSMFDSHDEFNEWFSKDIE 145
+ R+ L+GTPI+N + +LW++ F+ P + S+ EF F+ I+
Sbjct: 176 KSKYRIALTGTPIENKVDDLWSIXTFLNPGLLGSYSEFKSKFATPIK 222
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 42.4 bits (98), Expect = 1e-04, Method: Composition-based stats.
Identities = 26/100 (26%), Positives = 49/100 (49%), Gaps = 12/100 (12%)
Query: 41 VVITSYQLVVSDFKYFNRIKWQYLILDEAQAIVDINVYSYLNDIEREQSMRWKLLLGFSC 100
++I SY+ + ++ K +I DE + + + +YL L +
Sbjct: 173 ILIISYETFRLHAEVLHKGKVGLVICDEGHRLKNSDNQTYL------------ALNSMNA 220
Query: 101 RNRLLLSGTPIQNSMAELWALLHFIMPSMFDSHDEFNEWF 140
+ R+L+SGTPIQN + E ++L+HF+ + + EF + F
Sbjct: 221 QRRVLISGTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRF 260
>pdb|2JGZ|B Chain B, Crystal Structure Of Phospho-Cdk2 In Complex With Cyclin
B
Length = 260
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 76 NVYSYLNDIEREQSMRWKLLLG 97
++Y+YL +E EQ++R K LLG
Sbjct: 7 DIYAYLRQLEEEQAVRPKYLLG 28
>pdb|2H4Q|A Chain A, Crystal Structure Of A M-Loop Deletion Variant Of Ment In
The Cleaved Conformation
Length = 382
Score = 26.6 bits (57), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 22/43 (51%)
Query: 132 SHDEFNEWFSKDIESHAENKTSIDEREYPIVLMLIYSAHNKAE 174
S E N W K ES +N S D+ + L+L+ + + KAE
Sbjct: 169 SRKEINTWVEKQTESKIKNLLSSDDVKATTRLILVNAIYFKAE 211
>pdb|2DUT|A Chain A, Crystal Structure Of A M-Loop Deletion Variant Of Ment In
The Native Conformation
pdb|2DUT|B Chain B, Crystal Structure Of A M-Loop Deletion Variant Of Ment In
The Native Conformation
pdb|2DUT|C Chain C, Crystal Structure Of A M-Loop Deletion Variant Of Ment In
The Native Conformation
pdb|2DUT|D Chain D, Crystal Structure Of A M-Loop Deletion Variant Of Ment In
The Native Conformation
Length = 423
Score = 26.6 bits (57), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 22/43 (51%)
Query: 132 SHDEFNEWFSKDIESHAENKTSIDEREYPIVLMLIYSAHNKAE 174
S E N W K ES +N S D+ + L+L+ + + KAE
Sbjct: 169 SRKEINTWVEKQTESKIKNLLSSDDVKATTRLILVNAIYFKAE 211
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
0.323 0.136 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,279,704
Number of Sequences: 62578
Number of extensions: 202850
Number of successful extensions: 449
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 435
Number of HSP's gapped (non-prelim): 10
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)