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= 009243
         (539 letters)

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

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



>pdb|4ACJ|A Chain A, Crystal Structure Of The Tldc Domain Of Oxidation
           Resistance Protein 2 From Zebrafish
          Length = 167

 Score = 38.5 bits (88), Expect = 0.009,   Method: Compositional matrix adjust.
 Identities = 36/167 (21%), Positives = 69/167 (41%), Gaps = 33/167 (19%)

Query: 315 NLLYRSSLHGRGLNRFWSNIEGYHGPLLILVSANSGDASDHETSARKWIIGALTQQGFEN 374
           NL + +S HG  +   +  ++    P+L+++  + G            I GAL  + F+ 
Sbjct: 30  NLAFSTSKHGMSIKTLYRAMQDQDSPMLLVIKDSDGQ-----------IFGALASEPFKV 78

Query: 375 KDVFYGSSGN-LYAISPTFHVFLPSGKEKNFVYSHLHPSGRVYEPHPKPVGIAFGGTMGN 433
            + FYG+    L+   P F  +  +G    F+   +               +AFGG  G 
Sbjct: 79  SEGFYGTGETFLFTFYPEFEAYKWTGDNLFFIKGDMD-------------SLAFGGGSGE 125

Query: 434 ERIFIDEDFARVTVRHHAVDRTYQHGSLIPHQGFLPVESLILEIEVW 480
             +++D D      R+H+  +T+ +  L   + F      + +IE+W
Sbjct: 126 FGLWLDGDLYH--GRNHSC-KTFGNPMLSMKEDF-----FVQDIEIW 164


>pdb|2QM7|A Chain A, Meab, A Bacterial Homolog Of Mmaa, Bound To Gdp
 pdb|2QM7|B Chain B, Meab, A Bacterial Homolog Of Mmaa, Bound To Gdp
          Length = 337

 Score = 29.3 bits (64), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 14/22 (63%)

Query: 320 SSLHGRGLNRFWSNIEGYHGPL 341
           S LHG+GL+  WS IE +   L
Sbjct: 241 SGLHGKGLDSLWSRIEDHRSKL 262


>pdb|2QM8|A Chain A, Meab, A Bacterial Homolog Of Mmaa, In The Nucleotide Free
           Form
 pdb|2QM8|B Chain B, Meab, A Bacterial Homolog Of Mmaa, In The Nucleotide Free
           Form
          Length = 337

 Score = 28.9 bits (63), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 14/22 (63%)

Query: 320 SSLHGRGLNRFWSNIEGYHGPL 341
           S LHG+GL+  WS IE +   L
Sbjct: 241 SGLHGKGLDSLWSRIEDHRSKL 262


  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
   0.320    0.135    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,017,965
Number of Sequences: 62578
Number of extensions: 666907
Number of successful extensions: 1398
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1384
Number of HSP's gapped (non-prelim): 14
length of query: 539
length of database: 14,973,337
effective HSP length: 104
effective length of query: 435
effective length of database: 8,465,225
effective search space: 3682372875
effective search space used: 3682372875
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: 54 (25.4 bits)