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= 023883
         (276 letters)

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

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



>pdb|1MHS|A Chain A, Model Of Neurospora Crassa Proton Atpase
 pdb|1MHS|B Chain B, Model Of Neurospora Crassa Proton Atpase
          Length = 920

 Score = 28.9 bits (63), Expect = 3.2,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 1/55 (1%)

Query: 77  LLQQAEPSIIAATGTGTIPASMLAAAGASVSEQGNSVSAGLHTKIEGLGPGVGSI 131
           +LQQ    ++A TG G   A  L  A   ++ +G+S +A     I  L PG+G+I
Sbjct: 621 ILQQ-RGYLVAMTGDGVNDAPSLKKADTGIAVEGSSDAARSAADIVFLAPGLGAI 674


>pdb|1G3N|C Chain C, Structure Of A P18(Ink4c)-Cdk6-K-Cyclin Ternary Complex
 pdb|1G3N|G Chain G, Structure Of A P18(Ink4c)-Cdk6-K-Cyclin Ternary Complex
          Length = 257

 Score = 28.1 bits (61), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 91  TGTIPASMLAAAGASVSEQGNSVSAGLHTKIEGLGPGVGSINRANWTMMSA 141
           TG++PAS+++AAG ++    N +    H+   G+ P + SI   + +++ A
Sbjct: 189 TGSLPASIISAAGCALLVPANVIPQDTHSG--GVVPQLASILGCDVSVLQA 237


>pdb|2YIU|B Chain B, X-Ray Structure Of The Dimeric Cytochrome Bc1 Complex From
           The Soil Bacterium Paracoccus Denitrificans At 2.7
           Angstrom Resolution
 pdb|2YIU|E Chain E, X-Ray Structure Of The Dimeric Cytochrome Bc1 Complex From
           The Soil Bacterium Paracoccus Denitrificans At 2.7
           Angstrom Resolution
          Length = 263

 Score = 27.3 bits (59), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 14/47 (29%)

Query: 145 RSQIPSGVWPTINGTGSGFIQNSGQLTSNFGSENLSLSANPKFGFHG 191
           R ++P+  +PT++G G G               +LSL A  + GFHG
Sbjct: 103 RPRVPTDHFPTVSGEGMG--------------PDLSLMAKARAGFHG 135


  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
   0.314    0.130    0.378 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,162,043
Number of Sequences: 62578
Number of extensions: 270052
Number of successful extensions: 477
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 474
Number of HSP's gapped (non-prelim): 8
length of query: 276
length of database: 14,973,337
effective HSP length: 97
effective length of query: 179
effective length of database: 8,903,271
effective search space: 1593685509
effective search space used: 1593685509
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)