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= psy627
         (89 letters)

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

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



>pdb|2JYA|A Chain A, Nmr Solution Structure Of Protein Atu1810 From
          Agrobacterium Tumefaciens. Northeast Structural
          Genomics Consortium Target Atr23, Ontario Centre For
          Structural Proteomics Target Atc1776
          Length = 106

 Score = 65.1 bits (157), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 33/83 (39%), Positives = 47/83 (56%), Gaps = 1/83 (1%)

Query: 1  MQSGTHNANNWFIQFDTR-ERWENPLMGWCSTGDPLSNLALNFSSKEDAIQYCQKNGWKF 59
          MQSGT   N W ++FD    R  +P+MG+ S+ D    + L F ++E A  Y Q+ G ++
Sbjct: 16 MQSGTAKTNVWVLEFDAEVPRKIDPIMGYTSSSDMKQQVKLTFETQEQAEAYAQRKGIEY 75

Query: 60 FVEEPKWKTPKVKSYAFNFSWNK 82
           V  PK  T KV SY  NF +N+
Sbjct: 76 RVILPKEATRKVVSYTDNFRFNR 98


>pdb|2LJU|A Chain A, Solution Structure Of Putative Oxidoreductase From
           Ehrlichia Chaffeensis, Seattle Structural Genomics
           Center For Infectious Disease (Ssgcid)
          Length = 108

 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/80 (31%), Positives = 41/80 (51%), Gaps = 1/80 (1%)

Query: 1   MQSGTHNANNWFIQFDTR-ERWENPLMGWCSTGDPLSNLALNFSSKEDAIQYCQKNGWKF 59
           MQSG      W ++F+    ++  PLM W  + D    + L+F+++E AI Y   +   +
Sbjct: 24  MQSGHSKLKAWKLEFEPSCTQYTEPLMNWTGSHDTKQQVCLSFTTRELAIAYAVAHKIDY 83

Query: 60  FVEEPKWKTPKVKSYAFNFS 79
            V +   +T   KSYA NF+
Sbjct: 84  TVLQDNPRTIVPKSYADNFT 103


>pdb|3CC1|A Chain A, Crystal Structure Of A Putative
          Alpha-N-Acetylgalactosaminidase (Bh1870) From Bacillus
          Halodurans C-125 At 2.00 A Resolution
 pdb|3CC1|B Chain B, Crystal Structure Of A Putative
          Alpha-N-Acetylgalactosaminidase (Bh1870) From Bacillus
          Halodurans C-125 At 2.00 A Resolution
          Length = 433

 Score = 25.4 bits (54), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 10/36 (27%), Positives = 18/36 (50%)

Query: 42 FSSKEDAIQYCQKNGWKFFVEEPKWKTPKVKSYAFN 77
            + E    + +K GW++ V + +W  P   S A+N
Sbjct: 32 LGNAEYXANHLKKYGWEYIVVDIQWYEPTANSSAYN 67


  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
   0.317    0.129    0.443 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,096,319
Number of Sequences: 62578
Number of extensions: 112079
Number of successful extensions: 196
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 191
Number of HSP's gapped (non-prelim): 6
length of query: 89
length of database: 14,973,337
effective HSP length: 56
effective length of query: 33
effective length of database: 11,468,969
effective search space: 378475977
effective search space used: 378475977
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)