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= psy12356
         (400 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|3DW8|B Chain B, Structure Of A Protein Phosphatase 2a Holoenzyme With B55
           Subunit
 pdb|3DW8|E Chain E, Structure Of A Protein Phosphatase 2a Holoenzyme With B55
           Subunit
          Length = 447

 Score =  144 bits (364), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 76/153 (49%), Positives = 98/153 (64%), Gaps = 30/153 (19%)

Query: 234 NSGRYMISRDYLCVKVWDLHMESRPVETYPTHTKEENGQLRDPSNITALRVPQIKPIELT 293
           N+ ++++S +   +K+W +    +  E Y  + KEE+G+ RDP+ +T LRVP  +P++L 
Sbjct: 106 NAAQFLLSTNDKTIKLWKISERDKRPEGY--NLKEEDGRYRDPTTVTTLRVPVFRPMDLM 163

Query: 294 VEASPRRIFANAHTYHINSISVNSDQLTVEASPRGIFADAHTYHISSTSVNSDQETYLSA 353
           VEAS                            PR IFA+AHTYHI+S S+NSD ETYLSA
Sbjct: 164 VEAS----------------------------PRRIFANAHTYHINSISINSDYETYLSA 195

Query: 354 DDLRINLWHLEITDQSFNIVDIKPTNMEELNEV 386
           DDLRINLWHLEITD+SFNIVDIKP NMEEL EV
Sbjct: 196 DDLRINLWHLEITDRSFNIVDIKPANMEELTEV 228



 Score =  132 bits (333), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 64/85 (75%), Positives = 71/85 (83%)

Query: 15  GELLATGDKGGRVVIFQRDPLSKTSIPKRGEYNVYSTFQSHEPEFDYLKSLEIEEKINKI 74
           GELLATGDKGGRVVIFQ++  +K     RGEYNVYSTFQSHEPEFDYLKSLEIEEKINKI
Sbjct: 40  GELLATGDKGGRVVIFQQEQENKIQSHSRGEYNVYSTFQSHEPEFDYLKSLEIEEKINKI 99

Query: 75  RWLRRKNQAHFLLSTNDQSFNIVDI 99
           RWL +KN A FLLSTND++  +  I
Sbjct: 100 RWLPQKNAAQFLLSTNDKTIKLWKI 124



 Score =  118 bits (296), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 53/79 (67%), Positives = 61/79 (77%)

Query: 187 KPAIRLCDMRAAALCDRHSKFFEEPEDPTNKXXXXXXXXXXXDVKISNSGRYMISRDYLC 246
           K  IRLCDMRA+ALCDRHSK FEEPEDP+N+           DVK S+SGRYM++RDYL 
Sbjct: 248 KGTIRLCDMRASALCDRHSKLFEEPEDPSNRSFFSEIISSISDVKFSHSGRYMMTRDYLS 307

Query: 247 VKVWDLHMESRPVETYPTH 265
           VKVWDL+ME+RPVETY  H
Sbjct: 308 VKVWDLNMENRPVETYQVH 326



 Score =  114 bits (285), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 54/67 (80%), Positives = 56/67 (83%)

Query: 87  LSTNDQSFNIVDIKPTNMEELNEVITAAEFHPIDCNLFVYSSSKGTIRLCDMRAAALCDR 146
           L   D+SFNIVDIKP NMEEL EVITAAEFHP  CN FVYSSSKGTIRLCDMRA+ALCDR
Sbjct: 205 LEITDRSFNIVDIKPANMEELTEVITAAEFHPNSCNTFVYSSSKGTIRLCDMRASALCDR 264

Query: 147 HSKCLIE 153
           HSK   E
Sbjct: 265 HSKLFEE 271


>pdb|3EI4|B Chain B, Structure Of The Hsddb1-Hsddb2 Complex
 pdb|3EI4|D Chain D, Structure Of The Hsddb1-Hsddb2 Complex
 pdb|3EI4|F Chain F, Structure Of The Hsddb1-Hsddb2 Complex
          Length = 436

 Score = 33.1 bits (74), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 3/52 (5%)

Query: 94  FNIVDIKPTNMEELNE--VITAAEFHPIDCNLFVYSSSKGTIRLCDMRAAAL 143
           F I D KPT ++ +     IT  +F+P++ N F  SS +GT RL D +   L
Sbjct: 150 FGIKD-KPTFIKGIGAGGSITGLKFNPLNTNQFYASSMEGTTRLQDFKGNIL 200


>pdb|4E54|B Chain B, Damaged Dna Induced Uv-Damaged Dna-Binding Protein
           (Uv-Ddb) Dimerization And Its Roles In Chromatinized Dna
           Repair
          Length = 435

 Score = 33.1 bits (74), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 3/52 (5%)

Query: 94  FNIVDIKPTNMEELNE--VITAAEFHPIDCNLFVYSSSKGTIRLCDMRAAAL 143
           F I D KPT ++ +     IT  +F+P++ N F  SS +GT RL D +   L
Sbjct: 149 FGIKD-KPTFIKGIGAGGSITGLKFNPLNTNQFYASSMEGTTRLQDFKGNIL 199


>pdb|4E5Z|B Chain B, Damaged Dna Induced Uv-Damaged Dna-Binding Protein
           (Uv-Ddb) Dimerization And Its Roles In Chromatinized Dna
           Repair
          Length = 436

 Score = 33.1 bits (74), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 3/52 (5%)

Query: 94  FNIVDIKPTNMEELNE--VITAAEFHPIDCNLFVYSSSKGTIRLCDMRAAAL 143
           F I D KPT ++ +     IT  +F+P++ N F  SS +GT RL D +   L
Sbjct: 149 FGIKD-KPTFIKGIGAGGSITGLKFNPLNTNQFYASSMEGTTRLQDFKGNIL 199


  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
   0.319    0.134    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,698,162
Number of Sequences: 62578
Number of extensions: 405774
Number of successful extensions: 931
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 923
Number of HSP's gapped (non-prelim): 14
length of query: 400
length of database: 14,973,337
effective HSP length: 101
effective length of query: 299
effective length of database: 8,652,959
effective search space: 2587234741
effective search space used: 2587234741
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: 52 (24.6 bits)