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= 042652
         (328 letters)

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

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



>pdb|2XMO|A Chain A, The Crystal Structure Of Lmo2642
 pdb|2XMO|B Chain B, The Crystal Structure Of Lmo2642
          Length = 443

 Score = 36.2 bits (82), Expect = 0.029,   Method: Compositional matrix adjust.
 Identities = 20/73 (27%), Positives = 35/73 (47%), Gaps = 8/73 (10%)

Query: 64  YSENMTWVKCLSTTRHKKDVLLVAGDVAEK-----YDDFVLTMSLLKDRFQRVLFVPGNH 118
           YS+ +T          K DVL+++GD+        +++    ++ ++    +V  VPGNH
Sbjct: 76  YSDEITDAFLADVESKKTDVLIISGDLTNNGEKTSHEELAKKLTQVEKNGTQVFVVPGNH 135

Query: 119 DL---WCRGEEND 128
           D+   W R  E D
Sbjct: 136 DINNPWARKFEKD 148


>pdb|2DFJ|A Chain A, Crystal Structure Of The Diadenosine Tetraphosphate
           Hydrolase From Shigella Flexneri 2a
 pdb|2DFJ|B Chain B, Crystal Structure Of The Diadenosine Tetraphosphate
           Hydrolase From Shigella Flexneri 2a
          Length = 280

 Score = 28.5 bits (62), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 1/69 (1%)

Query: 52  LRVFVLSDLHTDYSENMTWVKCLSTTRHKKDVLLVAGDVAEKYDDFVLTMSLLKDRFQRV 111
           +  +++ D+H  Y E +  +  +  T   KD L + GD+  +    +  +  +K     V
Sbjct: 1   MATYLIGDVHGCYDELIALLHKVEFTP-GKDTLWLTGDLVARGPGSLDVLRYVKSLGDSV 59

Query: 112 LFVPGNHDL 120
             V GNHDL
Sbjct: 60  RLVLGNHDL 68


>pdb|1G5B|A Chain A, Bacteriophage Lambda SerTHR PROTEIN PHOSPHATASE
 pdb|1G5B|B Chain B, Bacteriophage Lambda SerTHR PROTEIN PHOSPHATASE
 pdb|1G5B|C Chain C, Bacteriophage Lambda SerTHR PROTEIN PHOSPHATASE
          Length = 221

 Score = 27.7 bits (60), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 3/67 (4%)

Query: 53  RVFVLSDLHTDYSENMTWVKCLSTTRHKKDVLLVAGDVAEKYDDFVLTMSLLKDRFQRVL 112
            ++V+ DLH  Y+  M  +  +    +KKD+L+  GD+ ++  + V  + L+   + R  
Sbjct: 14  NIWVVGDLHGCYTNLMNKLDTIGFD-NKKDLLISVGDLVDRGAENVECLELITFPWFRA- 71

Query: 113 FVPGNHD 119
            V GNH+
Sbjct: 72  -VRGNHE 77


  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
   0.324    0.141    0.453 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,113,101
Number of Sequences: 62578
Number of extensions: 427969
Number of successful extensions: 962
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 958
Number of HSP's gapped (non-prelim): 7
length of query: 328
length of database: 14,973,337
effective HSP length: 99
effective length of query: 229
effective length of database: 8,778,115
effective search space: 2010188335
effective search space used: 2010188335
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)