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= psy10039
         (450 letters)

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

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



>pdb|3I76|A Chain A, The Crystal Structure Of The Orthorhombic Form Of The
           Putative Had- Hydrolase Yfnb From Bacillus Subtilis
           Bound To Magnesium Reveals Interdomain Movement
 pdb|3I76|B Chain B, The Crystal Structure Of The Orthorhombic Form Of The
           Putative Had- Hydrolase Yfnb From Bacillus Subtilis
           Bound To Magnesium Reveals Interdomain Movement
 pdb|3I76|C Chain C, The Crystal Structure Of The Orthorhombic Form Of The
           Putative Had- Hydrolase Yfnb From Bacillus Subtilis
           Bound To Magnesium Reveals Interdomain Movement
          Length = 244

 Score = 32.3 bits (72), Expect = 0.55,   Method: Compositional matrix adjust.
 Identities = 19/91 (20%), Positives = 37/91 (40%)

Query: 46  YKTLSSLGILPALEVVLSAEDIATKNAAIDILNFIIEFSPSFIRDYTLQQAACISREEQD 105
           YK L   G+ P  + +  +ED   +    +  N++ E  P F  ++TL     ++ + + 
Sbjct: 132 YKRLRDSGLFPFFKDIFVSEDTGFQKPMKEYFNYVFERIPQFSAEHTLIIGDSLTADIKG 191

Query: 106 PMLVNVIIEQMVSDTDPELGRAVQLMSILKI 136
             L  +    M  D  P +   +    I K+
Sbjct: 192 GQLAGLDTCWMNPDMKPNVPEIIPTYEIRKL 222


>pdb|3ED5|A Chain A, The Crystal Structure Of Yfnb From Bacillus Subtilis
           Subsp. Subtilis Str. 168
          Length = 238

 Score = 30.4 bits (67), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 18/91 (19%), Positives = 36/91 (39%)

Query: 46  YKTLSSLGILPALEVVLSAEDIATKNAAIDILNFIIEFSPSFIRDYTLQQAACISREEQD 105
           YK L   G+ P  + +  +ED   +    +  N++ E  P F  ++TL     ++ + + 
Sbjct: 133 YKRLRDSGLFPFFKDIFVSEDTGFQKPXKEYFNYVFERIPQFSAEHTLIIGDSLTADIKG 192

Query: 106 PMLVNVIIEQMVSDTDPELGRAVQLMSILKI 136
             L  +       D  P +   +    I K+
Sbjct: 193 GQLAGLDTCWXNPDXKPNVPEIIPTYEIRKL 223


>pdb|2OUX|A Chain A, Crystal Structure Of The Soluble Part Of A Magnesium
          Transporter
 pdb|2OUX|B Chain B, Crystal Structure Of The Soluble Part Of A Magnesium
          Transporter
          Length = 286

 Score = 30.4 bits (67), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 24/85 (28%), Positives = 38/85 (44%), Gaps = 8/85 (9%)

Query: 6  LLHLLMEENTNELRRRDLALFLREYCQFSQNLQPQAKENFYKTLSSLGILPALEVVLSAE 65
          LL  L  +  NE R   LAL + E  QF Q+L  + +++ Y  LS   +    +V+   E
Sbjct: 15 LLETLKNQQXNEFRELFLALHIYEQGQFYQSLDEKDRQHLYNYLSPKELADXFDVI--EE 72

Query: 66 DIATKNAAIDILNFIIEFSPSFIRD 90
          D           +++ E  PS+  D
Sbjct: 73 DNENXK------DYLAEXRPSYAAD 91


  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    0.135    0.375 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,198,193
Number of Sequences: 62578
Number of extensions: 425816
Number of successful extensions: 1163
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: 1160
Number of HSP's gapped (non-prelim): 6
length of query: 450
length of database: 14,973,337
effective HSP length: 102
effective length of query: 348
effective length of database: 8,590,381
effective search space: 2989452588
effective search space used: 2989452588
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: 53 (25.0 bits)