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= psy13400
         (79 letters)

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

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



>pdb|3F9V|A Chain A, Crystal Structure Of A Near Full-Length Archaeal Mcm:
          Functional Insights For An Aaa+ Hexameric Helicase
          Length = 595

 Score = 26.9 bits (58), Expect = 3.3,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 32/66 (48%)

Query: 10 SQYIYKEKIKKMCENNFSSFTVEFQILANKENALAYFLPDAPLEMIAIFDEVAKDLVLSM 69
          +Q  Y E+I ++      S  +EF  + +    LAY + +    ++ I +    D +L +
Sbjct: 20 NQNKYIERINELVAYRKKSLIIEFSDVLSFNENLAYEIINNTKIILPILEGALYDHILQL 79

Query: 70 YPSYER 75
           P+Y+R
Sbjct: 80 DPTYQR 85


>pdb|2VL6|A Chain A, Structural Analysis Of The Sulfolobus Solfataricus Mcm
          Protein N-Terminal Domain
 pdb|2VL6|B Chain B, Structural Analysis Of The Sulfolobus Solfataricus Mcm
          Protein N-Terminal Domain
 pdb|2VL6|C Chain C, Structural Analysis Of The Sulfolobus Solfataricus Mcm
          Protein N-Terminal Domain
          Length = 268

 Score = 25.4 bits (54), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 2/67 (2%)

Query: 10 SQYIYKEKIKKMCENNFSSFTVEF-QILANKENALAYFLPDAPLEMIAIFDEVAKDLVLS 68
          +Q  Y E+I ++      S  +EF  +L+  EN LAY + +    ++ I +    D +L 
Sbjct: 26 NQNKYIERINELVAYRKKSLIIEFSDVLSFNEN-LAYEIINNTKIILPILEGALYDHILQ 84

Query: 69 MYPSYER 75
          + P+Y+R
Sbjct: 85 LDPTYQR 91


  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    0.134    0.377 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,119,583
Number of Sequences: 62578
Number of extensions: 64436
Number of successful extensions: 169
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 164
Number of HSP's gapped (non-prelim): 6
length of query: 79
length of database: 14,973,337
effective HSP length: 48
effective length of query: 31
effective length of database: 11,969,593
effective search space: 371057383
effective search space used: 371057383
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: 45 (21.9 bits)