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= 040084
         (127 letters)

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

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



>pdb|1YEL|A Chain A, Structure Of The Hypothetical Arabidopsis Thaliana Protein
           At1g16640.1
          Length = 104

 Score = 42.4 bits (98), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 20/57 (35%), Positives = 31/57 (54%)

Query: 51  NGYVWQVKLKKEGRKVWFDDGWQDFVEAYSTFVGSLVLFEYESNSTFQAHIYDETAC 107
           +G  W V++KK G KV+   GW++FV+  +   G  + F Y+ + TF   IY    C
Sbjct: 48  SGRSWTVRMKKRGEKVFLTVGWENFVKDNNLEDGKYLQFIYDRDRTFYVIIYGHNMC 104


>pdb|2ZO6|A Chain A, Crystal Structure Of Kusabira-Cyan (Kcy), A Cyan-Emitting
           Gfp-Like Protein
          Length = 252

 Score = 27.7 bits (60), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 19/80 (23%), Positives = 32/80 (40%), Gaps = 11/80 (13%)

Query: 31  NKIVRKFSHELSDVAHITIPNGYVWQVKLKKEGRKVWFDDGWQDFVEAYSTFVGSLVLFE 90
           N+ + K+  ++ D      P GY W+       RK  F+DG     +A  +  G+     
Sbjct: 94  NRCLTKYPDDIPDYFKQCFPGGYSWE-------RKFEFEDGGLAIAKAEISLKGNC---- 142

Query: 91  YESNSTFQAHIYDETACEIN 110
           +E  ST +    D +    N
Sbjct: 143 FEHKSTIEGTFPDSSPIAQN 162


>pdb|2ZO7|A Chain A, Crystal Structure Of A Kusabira-Cyan Mutant (Kcy-R1), A
           CyanGREEN- Emitting Gfp-Like Protein
          Length = 222

 Score = 27.3 bits (59), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 19/80 (23%), Positives = 32/80 (40%), Gaps = 11/80 (13%)

Query: 31  NKIVRKFSHELSDVAHITIPNGYVWQVKLKKEGRKVWFDDGWQDFVEAYSTFVGSLVLFE 90
           N+ + K+  ++ D      P GY W+       RK  F+DG     +A  +  G+     
Sbjct: 67  NRALTKYPDDIPDYFKQCFPGGYSWE-------RKFEFEDGGLAIAKAEISLKGNC---- 115

Query: 91  YESNSTFQAHIYDETACEIN 110
           +E  ST +    D +    N
Sbjct: 116 FEHKSTIEGTFPDSSPIMQN 135


>pdb|2NPI|A Chain A, Clp1-Atp-Pcf11 Complex
 pdb|2NPI|B Chain B, Clp1-Atp-Pcf11 Complex
          Length = 460

 Score = 25.8 bits (55), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 9/20 (45%), Positives = 13/20 (65%)

Query: 47 ITIPNGYVWQVKLKKEGRKV 66
          + IP G  WQ+ LK EG+ +
Sbjct: 41 LVIPKGSDWQIDLKAEGKLI 60


  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
   0.316    0.132    0.407 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,863,525
Number of Sequences: 62578
Number of extensions: 154633
Number of successful extensions: 358
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 355
Number of HSP's gapped (non-prelim): 13
length of query: 127
length of database: 14,973,337
effective HSP length: 87
effective length of query: 40
effective length of database: 9,529,051
effective search space: 381162040
effective search space used: 381162040
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)