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= 013308
         (445 letters)

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

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



>pdb|4F6O|A Chain A, Crystal Structure Of The Yeast Metacaspase Yca1
          Length = 350

 Score = 32.0 bits (71), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 28/104 (26%), Positives = 44/104 (42%), Gaps = 23/104 (22%)

Query: 162 VVDSGPNDHIFIFYSDHGGPG----------------VLGMPTSRYIYADELIDVLKKKH 205
           V D+ PND +F+ YS HGG                   +   T   I  DE+ D++ K  
Sbjct: 122 VKDAQPNDSLFLHYSGHGGQTEDLDGDEEDGMDDVIYPVDFETQGPIIDDEMHDIMVKPL 181

Query: 206 ASGNYKSLVFYLEACESGSIFEGLLPEGLNIYATTASNAEESSW 249
             G   + +F  ++C SG++ +  LP     Y+T     E + W
Sbjct: 182 QQGVRLTALF--DSCHSGTVLD--LPY---TYSTKGIIKEPNIW 218


>pdb|2NZT|A Chain A, Crystal Structure Of Human Hexokinase Ii
 pdb|2NZT|B Chain B, Crystal Structure Of Human Hexokinase Ii
          Length = 902

 Score = 30.8 bits (68), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 6/55 (10%)

Query: 381 KQFFEAMSHRMHVDHSIKLI------GKLLFGIEKGPEILNTVRPAGQPLVDDWG 429
           KQ FE M   M++   ++LI       +LLFG +  PE+LNT R   + + D  G
Sbjct: 276 KQLFEKMISGMYMGELVRLILVKMAKEELLFGGKLSPELLNTGRFETKDISDIEG 330


>pdb|2YEW|B Chain B, Modeling Barmah Forest Virus Structural Proteins
 pdb|2YEW|E Chain E, Modeling Barmah Forest Virus Structural Proteins
 pdb|2YEW|H Chain H, Modeling Barmah Forest Virus Structural Proteins
 pdb|2YEW|K Chain K, Modeling Barmah Forest Virus Structural Proteins
          Length = 427

 Score = 30.4 bits (67), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 13/64 (20%)

Query: 181 PGVLGMPTSRYIYADELIDVLKKKHASGNYKSLV--FYLEACESG-----------SIFE 227
           PG  G+P S  +   EL+  L + + + NYK++V   Y++ C              S+F 
Sbjct: 21  PGYAGLPLSLVVIKSELVPSLVQDYITCNYKTVVPSPYIKCCGGAECSKNEADYKCSVFT 80

Query: 228 GLLP 231
           G+ P
Sbjct: 81  GVYP 84


  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
   0.318    0.138    0.424 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,506,702
Number of Sequences: 62578
Number of extensions: 757923
Number of successful extensions: 1505
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1504
Number of HSP's gapped (non-prelim): 4
length of query: 445
length of database: 14,973,337
effective HSP length: 102
effective length of query: 343
effective length of database: 8,590,381
effective search space: 2946500683
effective search space used: 2946500683
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: 53 (25.0 bits)