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= psy1461
         (189 letters)

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

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



>pdb|2V6V|A Chain A, The Structure Of The Bem1p Px Domain
 pdb|2V6V|B Chain B, The Structure Of The Bem1p Px Domain
          Length = 156

 Score = 30.4 bits (67), Expect = 0.69,   Method: Compositional matrix adjust.
 Identities = 20/71 (28%), Positives = 29/71 (40%), Gaps = 4/71 (5%)

Query: 17  FYDEQLQRMDAIGIECLPFEDCLCQMLDMIKPEVPGKI----SLQDLKRCKMTRIFFDTF 72
           FYD Q+Q +DA   E     D   Q    I P +PG +    +    KR +   I+    
Sbjct: 56  FYDLQVQLLDAFPAEAGKLRDAGGQWSKRIXPYIPGPVPYVTNSITKKRKEDLNIYVADL 115

Query: 73  FNLEKYLDHEQ 83
            NL  Y+   +
Sbjct: 116 VNLPDYISRSE 126


>pdb|2CZO|A Chain A, Solution Structure Of The Px Domain Of Bem1p
          Length = 155

 Score = 29.6 bits (65), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 20/71 (28%), Positives = 29/71 (40%), Gaps = 4/71 (5%)

Query: 17  FYDEQLQRMDAIGIECLPFEDCLCQMLDMIKPEVPGKI----SLQDLKRCKMTRIFFDTF 72
           FYD Q+Q +DA   E     D   Q    I P +PG +    +    KR +   I+    
Sbjct: 58  FYDLQVQLLDAFPAEAGKLRDAGGQWSKRIMPYIPGPVPYVTNSITKKRKEDLNIYVADL 117

Query: 73  FNLEKYLDHEQ 83
            NL  Y+   +
Sbjct: 118 VNLPDYISRSE 128


>pdb|2G9B|A Chain A, Nmr Solution Structure Of Ca2+-Loaded Calbindin D28k
 pdb|2F33|A Chain A, Nmr Solution Structure Of Ca2+-Loaded Calbindin D28k
          Length = 263

 Score = 27.7 bits (60), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 16/33 (48%)

Query: 2  DLDGDGYLSMYELEYFYDEQLQRMDAIGIECLP 34
          D DG GYL   EL+    E LQ     G+E  P
Sbjct: 26 DADGSGYLEGKELQNLIQELLQARKKAGLELSP 58


>pdb|3SK0|A Chain A, Structure Of Rhodococcus Rhodochrous Haloalkane
           Dehalogenase Dhaa Mutant Dhaa12
          Length = 311

 Score = 26.9 bits (58), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 35/131 (26%), Positives = 55/131 (41%), Gaps = 24/131 (18%)

Query: 2   DLDGDGYLSMYELEYFYDEQLQRMDAIGIECLPFEDCLCQMLDMI----------KPEVP 51
           DL G G     +L+YF+D+ ++ +DA  IE L  E+ +  + D             PE  
Sbjct: 65  DLIGMGKSDKPDLDYFFDDHVRYLDAF-IEALGLEEVVLVIHDWGSALGFHWAKRNPERV 123

Query: 52  GKISLQDLKRCKMTRIFFDTFFNLE--KYLDHEQ--RDPFASQRDDDTLSSRMID----- 102
             I+  +  R   T   +D F + E  +  DH +  R+ F + R  D     +ID     
Sbjct: 124 KGIACMEFIRPIPT---WDEFHHTEVAEEQDHAEAARETFQAFRTADVGRELIIDQNAFI 180

Query: 103 -RIFSGTVTRS 112
            R+  G V R 
Sbjct: 181 ERVLPGGVVRP 191


>pdb|2V9Z|A Chain A, Structure Of The Rhodococcus Haloalkane Dehalogenase
           Mutant With Enhanced Enantioselectivity
          Length = 304

 Score = 26.6 bits (57), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 35/131 (26%), Positives = 55/131 (41%), Gaps = 24/131 (18%)

Query: 2   DLDGDGYLSMYELEYFYDEQLQRMDAIGIECLPFEDCLCQMLDMI----------KPEVP 51
           DL G G     +L+YF+D+ ++ +DA  IE L  E+ +  + D             PE  
Sbjct: 65  DLIGMGKSDKPDLDYFFDDHVRYLDAF-IEALGLEEVVLVIHDWGSALGFHWAKRNPERV 123

Query: 52  GKISLQDLKRCKMTRIFFDTFFNLE--KYLDHEQ--RDPFASQRDDDTLSSRMID----- 102
             I+  +  R   T   +D F + E  +  DH +  R+ F + R  D     +ID     
Sbjct: 124 KGIACMEFIRPIPT---WDEFHHTEVAEEQDHAEAARETFQAFRTADVGRELIIDQNAFI 180

Query: 103 -RIFSGTVTRS 112
            R+  G V R 
Sbjct: 181 ERVLPGGVVRP 191


  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
   0.327    0.142    0.440 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,652,492
Number of Sequences: 62578
Number of extensions: 212667
Number of successful extensions: 720
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 717
Number of HSP's gapped (non-prelim): 14
length of query: 189
length of database: 14,973,337
effective HSP length: 93
effective length of query: 96
effective length of database: 9,153,583
effective search space: 878743968
effective search space used: 878743968
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 48 (23.1 bits)