BLASTP 2.2.18 [Mar-02-2008]


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= 0126.0015.p
         (1595 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

RSp0279 [U] COG0823 Periplasmic component of the Tol biopolymer ...    80   2e-14

>RSp0279 [U] COG0823 Periplasmic component of the Tol biopolymer transport
           system
          Length = 475

 Score = 80.5 bits (197), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/130 (41%), Positives = 79/130 (60%), Gaps = 6/130 (4%)

Query: 848 LAEGKPVMASSAKAADVPPGNAVDG-SLTTRWGS---NYADPQWIYVDLGSSQPIAKVML 903
           L++G P  ASS+  + +   NA DG +  TRW S   + A  QW+ VDLG+ + I  V L
Sbjct: 346 LSQGMPASASSSYNSSLGAANAFDGDTANTRWDSIEGSAAGTQWLMVDLGTVRTINGVDL 405

Query: 904 HWESAYGKEYQIQVSDNTADWTTVYSTATGDGDIDDI-SFEPVNARYVRMYGTKRATTYG 962
           +W++   K Y IQ S +  +WT++YST+ G      + S    + RYVRMYGT+RAT +G
Sbjct: 406 YWDAG-AKTYAIQTSSDGVNWTSIYSTSNGIAYGHAVLSNLRGSGRYVRMYGTQRATQWG 464

Query: 963 YSLWEFKVYG 972
           YS+ E +V+G
Sbjct: 465 YSIDEMQVWG 474



 Score = 65.5 bits (158), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 40/92 (43%), Positives = 54/92 (58%), Gaps = 2/92 (2%)

Query: 751 NASDKEWIYVDLQDQYTINKVRLNWEKAYGKSYKIQVSDDAVTWTDVYTTSMGDG-GIDD 809
           +A+  +W+ VDL    TIN V L W+ A  K+Y IQ S D V WT +Y+TS G   G   
Sbjct: 383 SAAGTQWLMVDLGTVRTINGVDLYWD-AGAKTYAIQTSSDGVNWTSIYSTSNGIAYGHAV 441

Query: 810 ISFGKVSARFVRMLGVQQGTGDGYSLAEFNVY 841
           +S  + S R+VRM G Q+ T  GYS+ E  V+
Sbjct: 442 LSNLRGSGRYVRMYGTQRATQWGYSIDEMQVW 473


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.314    0.130    0.379 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 112,819,260
Number of extensions: 4746286
Number of successful extensions: 8164
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 8159
Number of HSP's successfully gapped: 2
Length of query: 1595
Length of database: 38,378,431
Length adjustment: 120
Effective length of query: 1475
Effective length of database: 24,538,351
Effective search space: 36194067725
Effective search space used: 36194067725
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 123 (52.0 bits)