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= 028409
         (209 letters)

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

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



>pdb|2OGH|A Chain A, Solution Structure Of Yeast Eif1
          Length = 108

 Score = 33.1 bits (74), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 31/61 (50%), Gaps = 1/61 (1%)

Query: 112 RNKRKCITIVKGLDLFGVKLSDASKKLGKKFATGASVVKGPTEKEQIDVQGDISYDIVEF 171
           RN RK +T V+G+      L    K L K FA   ++VK P   E I +QGD    + EF
Sbjct: 33  RNGRKTLTTVQGVPE-EYDLKRILKVLKKDFACNGNIVKDPEMGEIIQLQGDQRAKVCEF 91

Query: 172 I 172
           +
Sbjct: 92  M 92


>pdb|2IF1|A Chain A, Human Translation Initiation Factor Eif1, Nmr, 29
           Structures
          Length = 126

 Score = 28.5 bits (62), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 24/68 (35%), Positives = 37/68 (54%), Gaps = 3/68 (4%)

Query: 112 RNKRKCITIVKGL-DLFGVKLSDASKKLGKKFATGASVVKGPTEKEQIDVQGDISYDIVE 170
           RN RK +T V+G+ D +  K    + K  KKFA   +V++ P   E I +QGD   +I +
Sbjct: 51  RNGRKTLTTVQGIADDYDKKKLVKAFK--KKFACNGTVIEHPEYGEVIQLQGDQRKNICQ 108

Query: 171 FITDTWPA 178
           F+ +   A
Sbjct: 109 FLVEIGLA 116


>pdb|1MTC|A Chain A, Glutathione Transferase Mutant Y115f
 pdb|1MTC|B Chain B, Glutathione Transferase Mutant Y115f
          Length = 217

 Score = 27.3 bits (59), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 14/27 (51%), Positives = 16/27 (59%), Gaps = 3/27 (11%)

Query: 25  FGPDFEKCKPWLIKNAPE---LYPDLL 48
           F PDFEK KP  +K  PE   LY + L
Sbjct: 115 FNPDFEKQKPEFLKTIPEKMKLYSEFL 141


>pdb|5FWG|A Chain A, Tetra-(5-Fluorotryptophanyl)-Glutathione Transferase
 pdb|5FWG|B Chain B, Tetra-(5-Fluorotryptophanyl)-Glutathione Transferase
          Length = 217

 Score = 26.9 bits (58), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 3/27 (11%)

Query: 25  FGPDFEKCKPWLIKNAPE---LYPDLL 48
           + PDFEK KP  +K  PE   LY + L
Sbjct: 115 YNPDFEKQKPEFLKTIPEKMKLYSEFL 141


  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    0.137    0.421 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,754,454
Number of Sequences: 62578
Number of extensions: 200614
Number of successful extensions: 384
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 381
Number of HSP's gapped (non-prelim): 14
length of query: 209
length of database: 14,973,337
effective HSP length: 94
effective length of query: 115
effective length of database: 9,091,005
effective search space: 1045465575
effective search space used: 1045465575
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)