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= 022699
         (293 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 = 77.0 bits (188), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 59/199 (29%), Positives = 91/199 (45%), Gaps = 50/199 (25%)

Query: 102 GYSRCIDINEGFEFIYPDSWVGDQTLLYRAAEKSEFERSLDPPPINKNVKSSNGRRQNIN 161
           G    +D  +G+EF+YP  WV  Q                                  + 
Sbjct: 7   GLQAYVDSYDGYEFLYPRGWVQVQ----------------------------------VE 32

Query: 162 EPI-VAFGPPGSTGELNVSVIVSPVPPDFSIEAFGGPKEVGEAVVRTITG---SGRRPDV 217
           +P+ V F     T E NVSV+V+ V    S+E  G P+EVG+ ++R I     SGR    
Sbjct: 33  DPVDVVFHDIIETTE-NVSVVVNTVASTKSLEELGSPEEVGDRLLRNIIAPSESGR---- 87

Query: 218 KGSLIESNLREDSLRSIKYYELEFRVESP-----SFQRHNIAVCCTRNGKLYTLNAQAPE 272
             +LI +  ++   ++  YY LE+ V  P     + QRHN++      GK+YTL+  APE
Sbjct: 88  SSALIAATSQKADDKT--YYILEYAVTLPGDGNTAQQRHNLSSIAVSRGKVYTLSVSAPE 145

Query: 273 SVWPEVKSELYTVADSFSL 291
             WP+V+ +  T+  SF++
Sbjct: 146 ERWPKVEDQFKTIVSSFTV 164


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

 Score = 70.1 bits (170), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 52/193 (26%), Positives = 85/193 (44%), Gaps = 35/193 (18%)

Query: 100 IGGYSRCIDINEGFEFIYPDSWVGDQTLLYRAAEKSEFERSLDPPPINKNVKSSNGRRQN 159
           I    R  D  +G+EF+YP+ W+G   +  + A           P ++   +    R +N
Sbjct: 11  IASLQRYSDTKDGYEFLYPNGWIG---VDVKGA----------SPGVDVVFRDLIERDEN 57

Query: 160 INEPIVAFGPPGSTGELNVSVIVSPVPPDFSIEAFGGPKEVGEAVVRTITGSGRRPDVKG 219
           +                  SVI+S +P D ++   G   +VG   ++T+     + D + 
Sbjct: 58  L------------------SVIISEIPSDKTLTDLGTATDVGYRFMKTVN-DASQGDRQA 98

Query: 220 SLIESNLREDSLRSIKYYELEFRV-ESPSFQRHNIAVCCTRNGKLYTLNAQAPESVWPEV 278
            LI +  R++  +   YY LE+RV    + +RH++A   T  GKL T +    E  W  V
Sbjct: 99  ELINAEARDEDGQV--YYTLEYRVLVGDNVERHDLASVTTNRGKLITFDLSTAEDRWDTV 156

Query: 279 KSELYTVADSFSL 291
           KS   TVA SF +
Sbjct: 157 KSLFDTVASSFHV 169


>pdb|3QFW|A Chain A, Crystal Structure Of Rubisco-Like Protein From
           Rhodopseudomonas Palustris
 pdb|3QFW|B Chain B, Crystal Structure Of Rubisco-Like Protein From
           Rhodopseudomonas Palustris
          Length = 378

 Score = 31.6 bits (70), Expect = 0.59,   Method: Compositional matrix adjust.
 Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 1/50 (2%)

Query: 187 PDFSIEAFGGPKEVGEAVVRTITGSGRRPDVKGSLIESNLREDSLRSIKY 236
           P   + AFGGP+ VG A +RT+TG+  R     +L    L   +L SI +
Sbjct: 105 PAHYLTAFGGPR-VGLAGIRTLTGAQSRALTASALKPQGLSPAALASIAH 153


>pdb|1V2B|A Chain A, Crystal Structure Of Psbp Protein In The Oxygen-Evolving
           Complex Of Photosystem Ii From Higher Plants
 pdb|1V2B|B Chain B, Crystal Structure Of Psbp Protein In The Oxygen-Evolving
           Complex Of Photosystem Ii From Higher Plants
          Length = 177

 Score = 31.2 bits (69), Expect = 0.74,   Method: Compositional matrix adjust.
 Identities = 36/131 (27%), Positives = 56/131 (42%), Gaps = 21/131 (16%)

Query: 179 SVIVSPVPPDF-SIEAFGGPKEVGEAVVRTITGSGR-----RPDVKG-----SLIESNLR 227
           +VIV+  P D  SI  FG P++    V   +   GR     + D +G     ++  +N+ 
Sbjct: 49  NVIVAITPTDKKSITDFGSPEQFLSQVDYLL---GRQAYSGKTDSEGGFESDAVAIANVL 105

Query: 228 EDSLRSI---KYYELEFRVESPSFQ---RHNIAVCCTRNGKLYTLNAQAPESVWPE-VKS 280
           E S   +   +YY L     +       +H +      +GKLY   AQA +  W +  K 
Sbjct: 106 ETSTAEVGGKQYYYLSILTRTADGNEGGKHQLVTATVNDGKLYICKAQAGDKRWFKGAKK 165

Query: 281 ELYTVADSFSL 291
            +   A SFSL
Sbjct: 166 FVENTATSFSL 176


>pdb|2VU4|A Chain A, Structure Of Psbp Protein From Spinacia Oleracea At 1.98 A
           Resolution
          Length = 190

 Score = 30.8 bits (68), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 29/113 (25%), Positives = 47/113 (41%), Gaps = 16/113 (14%)

Query: 177 NVSVIVSPVPPDFSIEAFGGPKE--------VGEAVVRTITGSGRRPDVKGSLIESNLRE 228
           N+SV+V P     SI  FG P++        +G+      T S    D  G +  +N+ E
Sbjct: 62  NLSVLVQPTDKK-SITDFGSPEDFLSQVDYLLGKQAYFGKTDSEGGFD-SGVVASANVLE 119

Query: 229 DS---LRSIKYYELEFRVESPSFQ---RHNIAVCCTRNGKLYTLNAQAPESVW 275
            S   +   +YY +     +       +H +     ++GKLY   AQA +  W
Sbjct: 120 SSTPVVDGKQYYSITVLTRTADGDEGGKHQVIAATVKDGKLYICKAQAGDKRW 172


  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
   0.315    0.134    0.391 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,070,487
Number of Sequences: 62578
Number of extensions: 387681
Number of successful extensions: 781
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 774
Number of HSP's gapped (non-prelim): 8
length of query: 293
length of database: 14,973,337
effective HSP length: 98
effective length of query: 195
effective length of database: 8,840,693
effective search space: 1723935135
effective search space used: 1723935135
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: 51 (24.3 bits)