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= psy3229
         (174 letters)

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

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



>pdb|3RIP|A Chain A, Crystal Structure Of Human Gamma-Tubulin Complex Protein 4
           (Gcp4)
          Length = 677

 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 46/173 (26%), Positives = 83/173 (47%), Gaps = 28/173 (16%)

Query: 3   VEWPLSLIFNQKIIGCYQMLFRHLLLCKHVERQLCNVWLCHKSVKTESKSARESYLKSFA 62
           V+WPL ++F   ++  Y ++F++LL  + V+ +L + W      K   KS +   +K + 
Sbjct: 458 VQWPLHILFTPAVLEKYNVVFKYLLSVRRVQAELQHCWALQMQRK-HLKSNQTDAIK-WR 515

Query: 63  LRQQMLFCIQNLEYYMMEEVIESNYTHFIKSLN------------EHFMMPMKKESIVEL 110
           LR  M F + NL+YY+  +V+ES ++  +  +N            +HF+  +  +S + L
Sbjct: 516 LRNHMAFLVDNLQYYLQVDVLESQFSQLLHQINSTRDFESIRLAHDHFLSNLLAQSFILL 575

Query: 111 ----YCSNRSVWLCHK---------SVKTESKSARESYL-KSFALRQQMLFCI 149
               +C N  + LCH              E  +A+ S L K F+ +  +LF I
Sbjct: 576 KPVFHCLNEILDLCHSFCSLVSQNLGPLDERGAAQLSILVKGFSRQSSLLFKI 628



 Score = 33.1 bits (74), Expect = 0.080,   Method: Compositional matrix adjust.
 Identities = 12/33 (36%), Positives = 21/33 (63%)

Query: 141 LRQQMLFCIQNLEYYMMEEVIESNYTHFIKSLN 173
           LR  M F + NL+YY+  +V+ES ++  +  +N
Sbjct: 516 LRNHMAFLVDNLQYYLQVDVLESQFSQLLHQIN 548


>pdb|1YQ3|B Chain B, Avian Respiratory Complex Ii With Oxaloacetate And
           Ubiquinone
 pdb|1YQ4|B Chain B, Avian Respiratory Complex Ii With 3-Nitropropionate And
           Ubiquinone
 pdb|2FBW|B Chain B, Avian Respiratory Complex Ii With Carboxin Bound
 pdb|2FBW|O Chain O, Avian Respiratory Complex Ii With Carboxin Bound
 pdb|2H88|B Chain B, Avian Mitochondrial Respiratory Complex Ii At 1.8 Angstrom
           Resolution
 pdb|2H88|O Chain O, Avian Mitochondrial Respiratory Complex Ii At 1.8 Angstrom
           Resolution
 pdb|2H89|B Chain B, Avian Respiratory Complex Ii With Malonate Bound
 pdb|2WQY|B Chain B, Remodelling Of Carboxin Binding To The Q-Site Of Avian
           Respiratory Complex Ii
 pdb|2WQY|O Chain O, Remodelling Of Carboxin Binding To The Q-Site Of Avian
           Respiratory Complex Ii
          Length = 252

 Score = 26.9 bits (58), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 6/49 (12%)

Query: 25  HLLLCKHVERQLCNVWLCHKSV------KTESKSARESYLKSFALRQQM 67
           H+ + K +   L N +  +KS+      K ESK  +E YL+S   RQ++
Sbjct: 104 HMYVVKDLVPDLSNFYAQYKSIEPYLKKKDESKQGKEQYLQSIEDRQKL 152


  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
   0.325    0.133    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,374,835
Number of Sequences: 62578
Number of extensions: 137053
Number of successful extensions: 398
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 391
Number of HSP's gapped (non-prelim): 9
length of query: 174
length of database: 14,973,337
effective HSP length: 92
effective length of query: 82
effective length of database: 9,216,161
effective search space: 755725202
effective search space used: 755725202
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 48 (23.1 bits)