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= 034238
         (100 letters)

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

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



>pdb|2Y69|G Chain G, Bovine Heart Cytochrome C Oxidase Re-Refined With
          Molecular Oxygen
 pdb|2Y69|T Chain T, Bovine Heart Cytochrome C Oxidase Re-Refined With
          Molecular Oxygen
          Length = 97

 Score = 30.0 bits (66), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 25/71 (35%), Positives = 34/71 (47%), Gaps = 8/71 (11%)

Query: 26 RGFASSAHHDDAYETAK-WEKITYL----GIATCTVLAFYNLSKGHPHYEEPPRYEYLHI 80
          RG AS+A  D     A+ W  +T+      +A CT+ ++  L  GH        Y +L I
Sbjct: 10 RGLASAAKGDHGGXGARTWRFLTFGLALPSVALCTLNSW--LHSGHRERPAFIPYHHLRI 67

Query: 81 RNKEFPWGPDG 91
          R K F WG DG
Sbjct: 68 RTKPFSWG-DG 77


>pdb|4G0M|A Chain A, Crystal Structure Of Arabidopsis Thaliana Ago2 Mid Domain
 pdb|4G0M|B Chain B, Crystal Structure Of Arabidopsis Thaliana Ago2 Mid Domain
          Length = 150

 Score = 26.9 bits (58), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 12/32 (37%), Positives = 16/32 (50%)

Query: 22  APPKRGFASSAHHDDAYETAKWEKITYLGIAT 53
           A P     + +  DD Y+T KW   T LG+ T
Sbjct: 85  ARPTLVLCAMSRKDDGYKTLKWIAETKLGLVT 116


>pdb|1WEK|A Chain A, Crystal Structure Of The Conserved Hypothetical Protein
          Tt1465 From Thermus Thermophilus Hb8
 pdb|1WEK|B Chain B, Crystal Structure Of The Conserved Hypothetical Protein
          Tt1465 From Thermus Thermophilus Hb8
 pdb|1WEK|C Chain C, Crystal Structure Of The Conserved Hypothetical Protein
          Tt1465 From Thermus Thermophilus Hb8
 pdb|1WEK|D Chain D, Crystal Structure Of The Conserved Hypothetical Protein
          Tt1465 From Thermus Thermophilus Hb8
 pdb|1WEK|E Chain E, Crystal Structure Of The Conserved Hypothetical Protein
          Tt1465 From Thermus Thermophilus Hb8
 pdb|1WEK|F Chain F, Crystal Structure Of The Conserved Hypothetical Protein
          Tt1465 From Thermus Thermophilus Hb8
          Length = 217

 Score = 26.9 bits (58), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 13/55 (23%), Positives = 24/55 (43%), Gaps = 8/55 (14%)

Query: 24 PKRGFASSAHHDDAYETAK--------WEKITYLGIATCTVLAFYNLSKGHPHYE 70
          PK+      HH+D++   +        +E ++ L +   +V       +GHP YE
Sbjct: 2  PKKPLIDQLHHEDSWRLFRILAEFVEGFETLSELQVPLVSVFGSARFGEGHPAYE 56


>pdb|1OCC|G Chain G, Structure Of Bovine Heart Cytochrome C Oxidase At The
          Fully Oxidized State
 pdb|1OCC|T Chain T, Structure Of Bovine Heart Cytochrome C Oxidase At The
          Fully Oxidized State
 pdb|2OCC|G Chain G, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
          State
 pdb|2OCC|T Chain T, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
          State
 pdb|1OCO|G Chain G, Bovine Heart Cytochrome C Oxidase In Carbon
          Monoxide-bound State
 pdb|1OCO|T Chain T, Bovine Heart Cytochrome C Oxidase In Carbon
          Monoxide-bound State
 pdb|1OCR|G Chain G, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
          State
 pdb|1OCR|T Chain T, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
          State
 pdb|1OCZ|G Chain G, Bovine Heart Cytochrome C Oxidase In Azide-Bound State
 pdb|1OCZ|T Chain T, Bovine Heart Cytochrome C Oxidase In Azide-Bound State
 pdb|2YBB|R Chain R, Fitted Model For Bovine  Mitochondrial Supercomplex
          I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
          Length = 84

 Score = 25.4 bits (54), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 23/68 (33%), Positives = 32/68 (47%), Gaps = 8/68 (11%)

Query: 29 ASSAHHDDAYETAK-WEKITYL----GIATCTVLAFYNLSKGHPHYEEPPRYEYLHIRNK 83
          AS+A  D     A+ W  +T+      +A CT+ ++  L  GH        Y +L IR K
Sbjct: 1  ASAAKGDHGGTGARTWRFLTFGLALPSVALCTLNSW--LHSGHRERPAFIPYHHLRIRTK 58

Query: 84 EFPWGPDG 91
           F WG DG
Sbjct: 59 PFSWG-DG 65


  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
   0.318    0.133    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,464,279
Number of Sequences: 62578
Number of extensions: 128799
Number of successful extensions: 285
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 283
Number of HSP's gapped (non-prelim): 9
length of query: 100
length of database: 14,973,337
effective HSP length: 66
effective length of query: 34
effective length of database: 10,843,189
effective search space: 368668426
effective search space used: 368668426
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)