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= 031508
         (158 letters)

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

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



>pdb|2WSC|G Chain G, Improved Model Of Plant Photosystem I
 pdb|2WSE|G Chain G, Improved Model Of Plant Photosystem I
 pdb|2WSF|G Chain G, Improved Model Of Plant Photosystem I
          Length = 167

 Score =  191 bits (484), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 98/133 (73%), Positives = 106/133 (79%), Gaps = 2/133 (1%)

Query: 26  SFQGLRPLNTRAKTPLPKLATSAKRNSFG-GIKAELSTPLVISLSTGLSLFLGRFVFFNF 84
           SF GLRPL     +     + S          +AELS  LVISLSTGLSLFLGRFVFFNF
Sbjct: 36  SFSGLRPLKLNISSNNSSSSLSMSSARRSMTCRAELSPSLVISLSTGLSLFLGRFVFFNF 95

Query: 85  QRENVAKQGLPEQNGVTHFEAGDVRAKEYVSLLKSNDPVGFNIVDVLAWGSIGHIVAYYI 144
           QREN+AKQ +PEQNG++HFEAGD RAKEYVSLLKSNDPVGFNIVDVLAWGSIGHIVAYYI
Sbjct: 96  QRENMAKQ-VPEQNGMSHFEAGDTRAKEYVSLLKSNDPVGFNIVDVLAWGSIGHIVAYYI 154

Query: 145 LATSSNGYDPKFF 157
           LAT+SNGYDP FF
Sbjct: 155 LATASNGYDPSFF 167


>pdb|3LW5|G Chain G, Improved Model Of Plant Photosystem I
          Length = 95

 Score =  181 bits (460), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 87/96 (90%), Positives = 92/96 (95%), Gaps = 1/96 (1%)

Query: 62  TPLVISLSTGLSLFLGRFVFFNFQRENVAKQGLPEQNGVTHFEAGDVRAKEYVSLLKSND 121
           + LVISLSTGLSLFLGRFVFFNFQRENVAKQ +PEQNG+THFEAGD RAKEYVSLLKSND
Sbjct: 1   SALVISLSTGLSLFLGRFVFFNFQRENVAKQ-VPEQNGLTHFEAGDTRAKEYVSLLKSND 59

Query: 122 PVGFNIVDVLAWGSIGHIVAYYILATSSNGYDPKFF 157
           PVGFNIVDVLAWGSIGH+VAYYILAT+SNGYDP FF
Sbjct: 60  PVGFNIVDVLAWGSIGHVVAYYILATTSNGYDPAFF 95


>pdb|2O01|G Chain G, The Structure Of A Plant Photosystem I Supercomplex At 3.4
           Angstrom Resolution
          Length = 95

 Score =  179 bits (453), Expect = 7e-46,   Method: Compositional matrix adjust.
 Identities = 86/94 (91%), Positives = 91/94 (96%), Gaps = 1/94 (1%)

Query: 64  LVISLSTGLSLFLGRFVFFNFQRENVAKQGLPEQNGVTHFEAGDVRAKEYVSLLKSNDPV 123
           LVISLSTGLSLFLGRFVFFNFQREN+AKQ +PEQNG++HFEAGD RAKEYVSLLKSNDPV
Sbjct: 3   LVISLSTGLSLFLGRFVFFNFQRENMAKQ-VPEQNGMSHFEAGDTRAKEYVSLLKSNDPV 61

Query: 124 GFNIVDVLAWGSIGHIVAYYILATSSNGYDPKFF 157
           GFNIVDVLAWGSIGHIVAYYILAT+SNGYDP FF
Sbjct: 62  GFNIVDVLAWGSIGHIVAYYILATASNGYDPSFF 95


>pdb|2WSF|K Chain K, Improved Model Of Plant Photosystem I
          Length = 131

 Score = 47.0 bits (110), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 39/123 (31%), Positives = 57/123 (46%), Gaps = 23/123 (18%)

Query: 27  FQGLRPLNT-RAKTPLPKLATSAKRNSFGGIKAEL---STPLVISLSTGLSLFLGRFVFF 82
           F GLR  ++ R+   LP L    +R    GI+ +    ST L++  +T L LF GRF   
Sbjct: 14  FHGLRTYSSPRSMATLPSL----RRRRSQGIRCDYIGSSTNLIMVTTTTLMLFAGRF--- 66

Query: 83  NFQRENVAKQGLPEQNGVTHFEAGDVRAKEYVSLLKSNDPVGFNIVDVLAWGSIGHIVAY 142
                     GL             + A+E  S L++ DP GF + D LA G++GHI+  
Sbjct: 67  ----------GLAPSANRKATAGLKLEARE--SGLQTGDPAGFTLADTLACGAVGHIMGV 114

Query: 143 YIL 145
            I+
Sbjct: 115 GIV 117


>pdb|2WSC|K Chain K, Improved Model Of Plant Photosystem I
 pdb|2WSE|K Chain K, Improved Model Of Plant Photosystem I
          Length = 131

 Score = 46.2 bits (108), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 57/123 (46%), Gaps = 23/123 (18%)

Query: 27  FQGLRPLNT-RAKTPLPKLATSAKRNSFGGIKAEL---STPLVISLSTGLSLFLGRFVFF 82
           F GLR  ++ R+   LP L    +R    GI+ +    ST L++  +T L LF GRF   
Sbjct: 14  FHGLRTYSSPRSMATLPSL----RRRRSQGIRCDYIGSSTNLIMVTTTTLMLFAGRF--- 66

Query: 83  NFQRENVAKQGLPEQNGVTHFEAGDVRAKEYVSLLKSNDPVGFNIVDVLAWGSIGHIVAY 142
                     GL             + A+E  S +++ DP GF + D LA G++GHI+  
Sbjct: 67  ----------GLAPSANRKATAGLKLEARE--SGIQTGDPAGFTLADTLACGAVGHIMGV 114

Query: 143 YIL 145
            I+
Sbjct: 115 GIV 117


>pdb|3LW5|K Chain K, Improved Model Of Plant Photosystem I
          Length = 84

 Score = 37.0 bits (84), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 26/85 (30%), Positives = 39/85 (45%), Gaps = 17/85 (20%)

Query: 62  TPLVISLSTGLSLFLGRFVFF-NFQRENVAKQGLPEQNGVTHFEAGDVRAKEYVSLLKSN 120
           T L++  ST L LF GRF    +  R+  A   L  ++                S L++ 
Sbjct: 7   TNLIMVTSTSLMLFAGRFGLAPSANRKATAGLKLEVRD----------------SGLQTG 50

Query: 121 DPVGFNIVDVLAWGSIGHIVAYYIL 145
           DP GF + D LA G +GHI+   ++
Sbjct: 51  DPAGFTLADTLACGVVGHIIGVGVV 75


  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
   0.319    0.134    0.386 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,327,259
Number of Sequences: 62578
Number of extensions: 157357
Number of successful extensions: 245
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 235
Number of HSP's gapped (non-prelim): 8
length of query: 158
length of database: 14,973,337
effective HSP length: 91
effective length of query: 67
effective length of database: 9,278,739
effective search space: 621675513
effective search space used: 621675513
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)