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= psy15147
         (100 letters)

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

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



>pdb|2R6S|A Chain A, Crystal Structure Of Gab Protein
          Length = 325

 Score = 27.3 bits (59), Expect = 1.9,   Method: Composition-based stats.
 Identities = 9/23 (39%), Positives = 16/23 (69%)

Query: 29  PSIDIPSPERPPLRHIDKYVRPE 51
           P  D+    RP +R+ID++V+P+
Sbjct: 229 PVFDVDQQGRPVMRYIDQFVQPK 251


>pdb|1JR7|A Chain A, Crystal Structure Of Gab Reveals Oxidoreductase Fold
          Length = 311

 Score = 27.3 bits (59), Expect = 2.2,   Method: Composition-based stats.
 Identities = 9/23 (39%), Positives = 16/23 (69%)

Query: 29  PSIDIPSPERPPLRHIDKYVRPE 51
           P  D+    RP +R+ID++V+P+
Sbjct: 215 PVFDVDQQGRPVMRYIDQFVQPK 237


>pdb|3PKM|A Chain A, Crystal Structure Of Cas6 With Its Substrate Rna
 pdb|3PKM|X Chain X, Crystal Structure Of Cas6 With Its Substrate Rna
          Length = 269

 Score = 26.9 bits (58), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 12/32 (37%), Positives = 18/32 (56%)

Query: 57  KRYTMATLTCVGFIISFGMKCNLGFAKLQFEG 88
           + Y    L  VG+ + FG K +LGF  ++ EG
Sbjct: 213 RAYGNDDLLKVGYEVGFGEKNSLGFGMVKVEG 244


>pdb|3I4H|X Chain X, Crystal Structure Of Cas6 In Pyrococcus Furiosus
          Length = 273

 Score = 26.6 bits (57), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 12/32 (37%), Positives = 18/32 (56%)

Query: 57  KRYTMATLTCVGFIISFGMKCNLGFAKLQFEG 88
           + Y    L  VG+ + FG K +LGF  ++ EG
Sbjct: 217 RAYGNDDLLKVGYEVGFGEKNSLGFGMVKVEG 248


>pdb|3OYX|A Chain A, Haloferax Volcanii Malate Synthase MagnesiumGLYOXYLATE
           COMPLEX
 pdb|3OYZ|A Chain A, Haloferax Volcanii Malate Synthase PyruvateACETYL-Coa
           Ternary Complex
 pdb|3PUG|A Chain A, Haloferax Volcanii Malate Synthase Native At 3mm
           Glyoxylate
          Length = 433

 Score = 26.2 bits (56), Expect = 4.5,   Method: Composition-based stats.
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 31  IDIPSPERPPLRHIDKYVRPEI 52
           +DI  PER  + HI  +V PE+
Sbjct: 103 LDITDPERGAVEHIHGFVIPEV 124


  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
   0.320    0.138    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,314,473
Number of Sequences: 62578
Number of extensions: 129072
Number of successful extensions: 159
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 154
Number of HSP's gapped (non-prelim): 5
length of query: 100
length of database: 14,973,337
effective HSP length: 66
effective length of query: 34
effective length of database: 10,843,189
effective search space: 368668426
effective search space used: 368668426
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: 45 (21.9 bits)