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= 033136
         (126 letters)

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

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



>pdb|3LW5|E Chain E, Improved Model Of Plant Photosystem I
          Length = 64

 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 19/22 (86%), Positives = 20/22 (90%)

Query: 88  VKILRRESYWYNGIGSVVAVDQ 109
           VKILR+ESYWY G GSVVAVDQ
Sbjct: 9   VKILRKESYWYKGTGSVVAVDQ 30


>pdb|2WSC|E Chain E, Improved Model Of Plant Photosystem I
 pdb|2WSE|E Chain E, Improved Model Of Plant Photosystem I
 pdb|2WSF|E Chain E, Improved Model Of Plant Photosystem I
          Length = 143

 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 18/22 (81%), Positives = 20/22 (90%)

Query: 88  VKILRRESYWYNGIGSVVAVDQ 109
           VKILRRESYW+  +GSVVAVDQ
Sbjct: 87  VKILRRESYWFKNVGSVVAVDQ 108


>pdb|2O01|E Chain E, The Structure Of A Plant Photosystem I Supercomplex At 3.4
           Angstrom Resolution
          Length = 62

 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 18/22 (81%), Positives = 20/22 (90%)

Query: 88  VKILRRESYWYNGIGSVVAVDQ 109
           VKILRRESYW+  +GSVVAVDQ
Sbjct: 7   VKILRRESYWFKNVGSVVAVDQ 28


>pdb|1JB0|E Chain E, Crystal Structure Of Photosystem I: A Photosynthetic
           Reaction Center And Core Antenna System From
           Cyanobacteria
 pdb|3PCQ|E Chain E, Femtosecond X-Ray Protein Nanocrystallography
 pdb|4FE1|E Chain E, Improving The Accuracy Of Macromolecular Structure
           Refinement At 7 A Resolution
          Length = 75

 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 16/22 (72%), Positives = 19/22 (86%)

Query: 88  VKILRRESYWYNGIGSVVAVDQ 109
           VKILR ESYWYN +G+V +VDQ
Sbjct: 7   VKILRPESYWYNEVGTVASVDQ 28


>pdb|1PSE|A Chain A, The Three-Dimensional Solution Structure Of Psae From The
           Cyanobacterium Synechococcus Sp. Strain Pcc 7002: A
           Photosystem I Protein That Shows Structural Homology
           With Sh3 Domains
 pdb|1PSF|A Chain A, The Three-Dimensional Solution Structure Of Psae From The
           Cyanobacterium Synechococcus Sp. Strain Pcc 7002: A
           Photosystem I Protein That Shows Structural Homology
           With Sh3 Domains
          Length = 69

 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 18/36 (50%), Positives = 26/36 (72%), Gaps = 2/36 (5%)

Query: 88  VKILRRESYWYNGIGSVVAVDQVRLFSIFLVYVTFN 123
           VKILR+ESYWY  +G+V ++D+  +  I+ V V FN
Sbjct: 8   VKILRKESYWYGDVGTVASIDKSGI--IYPVIVRFN 41


>pdb|1QP2|A Chain A, Solution Structure Of Photosystem I Accessory Protein E
           From The Cyanobacterium Nostoc Sp. Strain Pcc 8009
 pdb|1QP3|A Chain A, Solution Structure Of Photosystem I Accessory Protein E
           From The Cyanobacterium Nostoc Sp. Strain Pcc 8009
          Length = 70

 Score = 35.0 bits (79), Expect = 0.010,   Method: Compositional matrix adjust.
 Identities = 13/22 (59%), Positives = 18/22 (81%)

Query: 88  VKILRRESYWYNGIGSVVAVDQ 109
           V+ILR ESYW+  +G+V +VDQ
Sbjct: 8   VRILRPESYWFQDVGTVASVDQ 29


>pdb|1GXI|E Chain E, Psae Sub-Unit Of The Photosystem I Of The Cyanobacterium
           Synechocystis Sp. Pcc 6803
          Length = 73

 Score = 30.8 bits (68), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 14/37 (37%), Positives = 24/37 (64%), Gaps = 2/37 (5%)

Query: 88  VKILRRESYWYNGIGSVVAVDQVRLFSIFLVYVTFNH 124
           V+I R ESYWY  +G+V +V++  +  ++ V V F+ 
Sbjct: 8   VRIKRTESYWYGDVGTVASVEKSGI--LYPVIVRFDR 42


>pdb|2L04|A Chain A, The Solution Structure Of The C-Terminal Ig-Like Domain
          Of The Bacteriophage Lambda Tail Tube Protein
          Length = 91

 Score = 25.4 bits (54), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 13/40 (32%), Positives = 22/40 (55%)

Query: 8  SAASGFSLTPNVATNVNSGSKSNMLFFPPKNNSSNSFRLV 47
          +AA+G ++TP   + V   S +  + F P+  +  SFR V
Sbjct: 4  AAATGMTVTPASTSVVKGQSTTLTVAFQPEGVTDKSFRAV 43


  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
   0.322    0.131    0.380 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,211,318
Number of Sequences: 62578
Number of extensions: 44332
Number of successful extensions: 72
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 64
Number of HSP's gapped (non-prelim): 8
length of query: 126
length of database: 14,973,337
effective HSP length: 87
effective length of query: 39
effective length of database: 9,529,051
effective search space: 371632989
effective search space used: 371632989
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)