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= 042585
         (286 letters)

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

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



>pdb|2YC2|A Chain A, Intraflagellar Transport Complex 25-27 From Chlamydomonas
 pdb|2YC2|B Chain B, Intraflagellar Transport Complex 25-27 From Chlamydomonas
 pdb|2YC4|A Chain A, Intraflagellar Transport Complex 25-27 From Chlamydomonas
 pdb|2YC4|B Chain B, Intraflagellar Transport Complex 25-27 From Chlamydomonas
          Length = 139

 Score = 28.5 bits (62), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 23/94 (24%), Positives = 42/94 (44%), Gaps = 6/94 (6%)

Query: 176 EFVRYNN--LVNVSSCKNLKH--LDLCDGSYTDEWLNSQISGLPLLEQLHISLCNNIESI 231
           ++ R  N  LV ++SC + +    ++ DG     W+ + +   P    L +  C  +  I
Sbjct: 7   DYAREENGGLVVMASCSDERFPPENMLDGKDNTFWVTTGM--FPQEFVLRLESCIRVSKI 64

Query: 232 TISSLRLKKLIINTCESNTIFSFGSIALFSLALR 265
           T  SL ++KL +  C+ +    F  +    LA R
Sbjct: 65  TTLSLNVRKLAVEKCDQDKPDQFEKVFEVELANR 98


  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
   0.322    0.135    0.398 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,378,437
Number of Sequences: 62578
Number of extensions: 253077
Number of successful extensions: 510
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 509
Number of HSP's gapped (non-prelim): 3
length of query: 286
length of database: 14,973,337
effective HSP length: 98
effective length of query: 188
effective length of database: 8,840,693
effective search space: 1662050284
effective search space used: 1662050284
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)