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= 025110
         (257 letters)

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

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



>pdb|2XB3|A Chain A, The Structure Of Cyanobacterial Psbp
          Length = 165

 Score = 83.6 bits (205), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 54/178 (30%), Positives = 90/178 (50%), Gaps = 21/178 (11%)

Query: 76  GFREYIDTFDGYSFKYPQNWIQVRGAG-ADIFYRDPYVLDENVSVELXXXXXXRYKSVED 134
           G + Y+D++DGY F YP+ W+QV+     D+ + D     ENVSV +        KS+E+
Sbjct: 7   GLQAYVDSYDGYEFLYPRGWVQVQVEDPVDVVFHDIIETTENVSVVVNTVAST--KSLEE 64

Query: 135 LGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNN 194
           LG P+E G ++LR  +    S      R S +++ +S+ ADD + YY++E  +       
Sbjct: 65  LGSPEEVGDRLLRNIIAPSES-----GRSSALIAATSQKADD-KTYYILEYAV------- 111

Query: 195 ELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRV 252
               +P D   N    R  LS + V   ++Y L +  PE  + + E+  + ++ SF V
Sbjct: 112 ---TLPGDG--NTAQQRHNLSSIAVSRGKVYTLSVSAPEERWPKVEDQFKTIVSSFTV 164


>pdb|2LNJ|A Chain A, Solution Structure Of Cyanobacterial Psbp (Cyanop) From
           Synechocystis Sp. Pcc 6803
          Length = 170

 Score = 50.4 bits (119), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 35/112 (31%), Positives = 57/112 (50%), Gaps = 12/112 (10%)

Query: 77  FREYIDTFDGYSFKYPQNWI--QVRGA--GADIFYRDPYVLDENVSVELXXXXXXRYKSV 132
            + Y DT DGY F YP  WI   V+GA  G D+ +RD    DEN+SV +        K++
Sbjct: 14  LQRYSDTKDGYEFLYPNGWIGVDVKGASPGVDVVFRDLIERDENLSVIISEIPSD--KTL 71

Query: 133 EDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVE 184
            DLG   + G + ++              R++ +++  +R  +DG++YY +E
Sbjct: 72  TDLGTATDVGYRFMKTVNDASQG-----DRQAELINAEAR-DEDGQVYYTLE 117


>pdb|3KUX|A Chain A, Structure Of The Ypo2259 Putative Oxidoreductase From
           Yersinia Pestis
          Length = 352

 Score = 32.7 bits (73), Expect = 0.22,   Method: Compositional matrix adjust.
 Identities = 22/57 (38%), Positives = 32/57 (56%), Gaps = 2/57 (3%)

Query: 61  SDFGFRNTALAQQSVGFREYIDT-FDGYSFKYPQNWIQVRGAGADIFYR-DPYVLDE 115
           SDF    T LA+ S+G   Y ++ FD Y  +  Q W +  GAG  I+Y   P++LD+
Sbjct: 131 SDFLTLKTLLAEGSLGNVVYFESHFDRYRPEIRQRWREQAGAGGGIWYDLGPHLLDQ 187


>pdb|2BOL|A Chain A, Crystal Structure And Assembly Of Tsp36, A Metazoan Small
           Heat Shock Protein
 pdb|2BOL|B Chain B, Crystal Structure And Assembly Of Tsp36, A Metazoan Small
           Heat Shock Protein
          Length = 314

 Score = 28.1 bits (61), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 11/60 (18%)

Query: 147 RQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSF--------ANNNELAV 198
           R++  E   T+ G   E + L  +  V  DGRL++ V  N+K+F        A+ N+L V
Sbjct: 83  REFHPELEYTQPG---ELDFLKDAYEVGKDGRLHFKVYFNVKNFKAEEITIKADKNKLVV 139


  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
   0.321    0.136    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,924,404
Number of Sequences: 62578
Number of extensions: 269613
Number of successful extensions: 603
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 599
Number of HSP's gapped (non-prelim): 4
length of query: 257
length of database: 14,973,337
effective HSP length: 97
effective length of query: 160
effective length of database: 8,903,271
effective search space: 1424523360
effective search space used: 1424523360
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)