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= 026386
         (239 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 = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 42/136 (30%), Positives = 67/136 (49%), Gaps = 8/136 (5%)

Query: 81  LQRYTDSNEGFTLLRPSSWIKVD-KAGATVLFEEANKGTNNLGVVVNPV-RVASLGEFGT 138
           LQ Y DS +G+  L P  W++V  +    V+F +  + T N+ VVVN V    SL E G+
Sbjct: 8   LQAYVDSYDGYEFLYPRGWVQVQVEDPVDVVFHDIIETTENVSVVVNTVASTKSLEELGS 67

Query: 139 PQFVADKLIQ-AEKRKESTIDTELIGASERSGHGGLKVYEFEYKV----DSSRGGLKRIF 193
           P+ V D+L++      ES   + LI A+ +        Y  EY V    D +    +   
Sbjct: 68  PEEVGDRLLRNIIAPSESGRSSALIAATSQKADDK-TYYILEYAVTLPGDGNTAQQRHNL 126

Query: 194 SAAFVASKKLYLLNIT 209
           S+  V+  K+Y L+++
Sbjct: 127 SSIAVSRGKVYTLSVS 142


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

 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 33/108 (30%), Positives = 54/108 (50%), Gaps = 7/108 (6%)

Query: 81  LQRYTDSNEGFTLLRPSSWIKVDKAGAT----VLFEEANKGTNNLGVVVNPV-RVASLGE 135
           LQRY+D+ +G+  L P+ WI VD  GA+    V+F +  +   NL V+++ +    +L +
Sbjct: 14  LQRYSDTKDGYEFLYPNGWIGVDVKGASPGVDVVFRDLIERDENLSVIISEIPSDKTLTD 73

Query: 136 FGTPQFVADKLIQ-AEKRKESTIDTELIGASERSGHGGLKVYEFEYKV 182
            GT   V  + ++      +     ELI A  R   G +  Y  EY+V
Sbjct: 74  LGTATDVGYRFMKTVNDASQGDRQAELINAEARDEDGQV-YYTLEYRV 120


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

 Score = 36.6 bits (83), Expect = 0.011,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 3/57 (5%)

Query: 87  SNEGFTLLRPSSWIKVDK---AGATVLFEEANKGTNNLGVVVNPVRVASLGEFGTPQ 140
           + +GF LL PS W    +    G  + +E+    T+NL V+V P    S+ +FG+P+
Sbjct: 26  NGDGFKLLVPSKWNPSKEKEFPGQVLRYEDNFDATSNLSVLVQPTDKKSITDFGSPE 82


>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 = 36.2 bits (82), Expect = 0.015,   Method: Compositional matrix adjust.
 Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 6/70 (8%)

Query: 78  EMELQRYTDSNEGFTLLRPSSW---IKVDKAGATVLFEEANKGTNNLGVVVNPVRVASLG 134
           + + Q Y  + +GF L  PS W    +V+  G  + FE+    T+N+ V + P    S+ 
Sbjct: 6   DTDFQTY--NGDGFKLQIPSKWNPNKEVEYPGQVLRFEDNFDATSNVIVAITPTDKKSIT 63

Query: 135 EFGTP-QFVA 143
           +FG+P QF++
Sbjct: 64  DFGSPEQFLS 73


>pdb|3I2N|A Chain A, Crystal Structure Of Wd40 Repeats Protein Wdr92
          Length = 357

 Score = 29.3 bits (64), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 2/66 (3%)

Query: 169 GHGGLKVYEFEYKVDSSRGGLKRIFSAAFVASKKLYLLNITHSDKPESPLDTHTRMMLEE 228
           G GGL ++++EY +  S+   + I     VA     L N+T S +P S LD         
Sbjct: 280 GAGGLHLWKYEYPIQRSKKDSEGIEMG--VAGSVSLLQNVTLSTQPISSLDWSPDKRGLC 337

Query: 229 VLHSFD 234
           V  SFD
Sbjct: 338 VCSSFD 343


>pdb|2ZXH|A Chain A, Structure Of Aquifex Aeolicus Gida In The Form I Crystal
 pdb|2ZXH|B Chain B, Structure Of Aquifex Aeolicus Gida In The Form I Crystal
 pdb|2ZXI|A Chain A, Structure Of Aquifex Aeolicus Gida In The Form Ii Crystal
 pdb|2ZXI|B Chain B, Structure Of Aquifex Aeolicus Gida In The Form Ii Crystal
 pdb|2ZXI|C Chain C, Structure Of Aquifex Aeolicus Gida In The Form Ii Crystal
 pdb|2ZXI|D Chain D, Structure Of Aquifex Aeolicus Gida In The Form Ii Crystal
          Length = 637

 Score = 27.7 bits (60), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 2/48 (4%)

Query: 66  LYPKLSKASLPEEM--ELQRYTDSNEGFTLLRPSSWIKVDKAGATVLF 111
           +YP     SLPEE+  E+ R     E   L+RP+  I+ D    T L+
Sbjct: 334 IYPNGLSTSLPEEVQWEMYRSIPGLENVVLIRPAYAIEYDVVPPTELY 381


  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    0.132    0.366 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,648,706
Number of Sequences: 62578
Number of extensions: 222982
Number of successful extensions: 471
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: 464
Number of HSP's gapped (non-prelim): 6
length of query: 239
length of database: 14,973,337
effective HSP length: 96
effective length of query: 143
effective length of database: 8,965,849
effective search space: 1282116407
effective search space used: 1282116407
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: 50 (23.9 bits)