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= psy5929
         (286 letters)

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

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



>pdb|2VGQ|A Chain A, Crystal Structure Of Human Ips-1 Card
          Length = 477

 Score = 30.4 bits (67), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 7/52 (13%)

Query: 199 VCSSFWNFCHV-VVQFEPEIQCVIEVGQIRKQLQFRTTTAISKERMVWGRWH 249
           +C +F NFC+V VV+  P + C+      R Q + R T  +S  R     WH
Sbjct: 396 ICRNFSNFCNVDVVEILPYLPCLT----ARDQDRLRATCTLSGNRDT--LWH 441


>pdb|4HJF|A Chain A, Crystal Structure Of Eal Domain From Caulobacter
           Crescentus In Complex With C-Di-Gmp And Ca
          Length = 340

 Score = 27.7 bits (60), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 12/25 (48%), Positives = 15/25 (60%)

Query: 58  EQMCVWRAAHPGHRILEVDLPLSYG 82
           +Q+  WRAAHP    L V + LS G
Sbjct: 149 QQLSTWRAAHPAXGNLTVSVNLSTG 173


>pdb|2FLI|A Chain A, The Crystal Structure Of D-Ribulose 5-Phosphate
           3-Epimerase From Streptococus Pyogenes Complexed With
           D-Xylitol 5- Phosphate
 pdb|2FLI|B Chain B, The Crystal Structure Of D-Ribulose 5-Phosphate
           3-Epimerase From Streptococus Pyogenes Complexed With
           D-Xylitol 5- Phosphate
 pdb|2FLI|C Chain C, The Crystal Structure Of D-Ribulose 5-Phosphate
           3-Epimerase From Streptococus Pyogenes Complexed With
           D-Xylitol 5- Phosphate
 pdb|2FLI|D Chain D, The Crystal Structure Of D-Ribulose 5-Phosphate
           3-Epimerase From Streptococus Pyogenes Complexed With
           D-Xylitol 5- Phosphate
 pdb|2FLI|E Chain E, The Crystal Structure Of D-Ribulose 5-Phosphate
           3-Epimerase From Streptococus Pyogenes Complexed With
           D-Xylitol 5- Phosphate
 pdb|2FLI|F Chain F, The Crystal Structure Of D-Ribulose 5-Phosphate
           3-Epimerase From Streptococus Pyogenes Complexed With
           D-Xylitol 5- Phosphate
 pdb|2FLI|G Chain G, The Crystal Structure Of D-Ribulose 5-Phosphate
           3-Epimerase From Streptococus Pyogenes Complexed With
           D-Xylitol 5- Phosphate
 pdb|2FLI|H Chain H, The Crystal Structure Of D-Ribulose 5-Phosphate
           3-Epimerase From Streptococus Pyogenes Complexed With
           D-Xylitol 5- Phosphate
 pdb|2FLI|I Chain I, The Crystal Structure Of D-Ribulose 5-Phosphate
           3-Epimerase From Streptococus Pyogenes Complexed With
           D-Xylitol 5- Phosphate
 pdb|2FLI|J Chain J, The Crystal Structure Of D-Ribulose 5-Phosphate
           3-Epimerase From Streptococus Pyogenes Complexed With
           D-Xylitol 5- Phosphate
 pdb|2FLI|K Chain K, The Crystal Structure Of D-Ribulose 5-Phosphate
           3-Epimerase From Streptococus Pyogenes Complexed With
           D-Xylitol 5- Phosphate
 pdb|2FLI|L Chain L, The Crystal Structure Of D-Ribulose 5-Phosphate
           3-Epimerase From Streptococus Pyogenes Complexed With
           D-Xylitol 5- Phosphate
          Length = 220

 Score = 27.7 bits (60), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 114 CISTEFTPKKHGGEKGVPFRIQVDTFVQDTTHRHLHSASCQVKVFKVSFLHKTS 167
           C+    T  K   EKG+ F I+VD  V + T R  + A   V V   S+L K S
Sbjct: 153 CLEKVATVAKWRDEKGLSFDIEVDGGVDNKTIRACYEAGANVFVAG-SYLFKAS 205


>pdb|3U2E|A Chain A, Eal Domain From Caulobacter Crescentus In Complex With
           5'-Pgpg And Mg++
 pdb|3U2E|B Chain B, Eal Domain From Caulobacter Crescentus In Complex With
           5'-Pgpg And Mg++
          Length = 261

 Score = 27.3 bits (59), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 12/25 (48%), Positives = 15/25 (60%)

Query: 58  EQMCVWRAAHPGHRILEVDLPLSYG 82
           +Q+  WRAAHP    L V + LS G
Sbjct: 79  QQLSTWRAAHPAXGNLTVSVNLSTG 103


>pdb|3S83|A Chain A, Crystal Structure Of Eal Domain From Caulobacter
           Crescentus Cb15
          Length = 259

 Score = 27.3 bits (59), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 12/25 (48%), Positives = 15/25 (60%)

Query: 58  EQMCVWRAAHPGHRILEVDLPLSYG 82
           +Q+  WRAAHP    L V + LS G
Sbjct: 76  QQLSTWRAAHPAXGNLTVSVNLSTG 100


  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
   0.322    0.134    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,236,187
Number of Sequences: 62578
Number of extensions: 309251
Number of successful extensions: 487
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 484
Number of HSP's gapped (non-prelim): 5
length of query: 286
length of database: 14,973,337
effective HSP length: 98
effective length of query: 188
effective length of database: 8,840,693
effective search space: 1662050284
effective search space used: 1662050284
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)