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= 0586.0045.p
         (89 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

YPO0708 [NU] COG1987 Flagellar biosynthesis pathway, component FliQ    57   9e-09
YPO1820a [NU] COG1987 Flagellar biosynthesis pathway, component ...    52   1e-07
STM1420 [U] COG4794 Type III secretory pathway, component EscS         49   1e-06
YPCD1.45 [U] COG4794 Type III secretory pathway, component EscS        47   7e-06

>YPO0708 [NU] COG1987 Flagellar biosynthesis pathway, component FliQ
          Length = 89

 Score = 56.6 bits (135), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 32/80 (40%), Positives = 44/80 (55%)

Query: 1  MNTEFIIGLAGQAVYLVLETSAPMXXXXXXXXXXXSIFQATTQIQEQTLAFIPKIVAVLL 60
          M T+    +    ++LVL  S              SIFQATTQI EQTL+F+P++V  +L
Sbjct: 1  MTTDIAGDIIAMGLHLVLMISIVAIVPSLLIGLLVSIFQATTQINEQTLSFLPRLVMTML 60

Query: 61 ALLLFGPWIITKLVDFTGQI 80
           L+  G W++ KL DFT  I
Sbjct: 61 VLIFAGKWMMIKLSDFTVSI 80


>YPO1820a [NU] COG1987 Flagellar biosynthesis pathway, component FliQ
          Length = 246

 Score = 52.4 bits (124), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 7/54 (12%), Positives = 13/54 (24%)

Query: 36 SIFQATTQIQEQTLAFIPKIVAVLLALLLFGPWIITKLVDFTGQILGSLNMYIG 89
              +        +  +  + A LL +  F   II   +        S      
Sbjct: 36 GQSWSLPVQTLVFITTLSFLPAALLMMTSFTRIIIVLGLLRNAMGTPSAPPNQV 89


>STM1420 [U] COG4794 Type III secretory pathway, component EscS
          Length = 88

 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/81 (34%), Positives = 47/81 (58%)

Query: 1  MNTEFIIGLAGQAVYLVLETSAPMXXXXXXXXXXXSIFQATTQIQEQTLAFIPKIVAVLL 60
          MN   +     Q +++VL TS P+           S+ QA TQIQ+QTL F+ K++A+ +
Sbjct: 1  MNDSELTQFVTQLLWIVLFTSMPVVLVASVVGVIVSLVQALTQIQDQTLQFMIKLLAIAI 60

Query: 61 ALLLFGPWIITKLVDFTGQIL 81
           L++  PW+   L+++T QI+
Sbjct: 61 TLMVSYPWLSGILLNYTRQIM 81


>YPCD1.45 [U] COG4794 Type III secretory pathway, component EscS
          Length = 88

 Score = 47.0 bits (110), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 29/76 (38%), Positives = 40/76 (52%)

Query: 1  MNTEFIIGLAGQAVYLVLETSAPMXXXXXXXXXXXSIFQATTQIQEQTLAFIPKIVAVLL 60
          M+   II    QA++LVL  S P            S+ QA TQIQEQTL F+ K++AV++
Sbjct: 1  MSQGDIIHFTSQALWLVLVLSMPPVLVAAVVGTLVSLVQALTQIQEQTLGFVIKLIAVVV 60

Query: 61 ALLLFGPWIITKLVDF 76
           L     W+  +L  F
Sbjct: 61 TLFATASWLGNELHSF 76


  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
   0.327    0.142    0.404 

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: 4,861,101
Number of extensions: 103355
Number of successful extensions: 384
Number of sequences better than 1.0e-05: 7
Number of HSP's gapped: 384
Number of HSP's successfully gapped: 7
Length of query: 89
Length of database: 38,378,431
Length adjustment: 59
Effective length of query: 30
Effective length of database: 31,573,725
Effective search space: 947211750
Effective search space used: 947211750
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 109 (46.6 bits)