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= 0586.0066.p
         (141 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

YPO1799 [N] COG1815 Flagellar basal body protein                       49   3e-06
STM1364 [R] COG0628 Predicted permease                                 47   8e-06

>YPO1799 [N] COG1815 Flagellar basal body protein
          Length = 137

 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 40/140 (28%), Positives = 66/140 (47%), Gaps = 24/140 (17%)

Query: 12  SVSFQRLQGGLDAATKRQSVLANNVANADTPNFKRSDVNFESYL-----QQQENGLKSTL 66
           ++ FQ  Q  L+   +RQ +L++N+ANADTP F+  D++F S L     Q + NG   +L
Sbjct: 8   ALRFQ--QEALNLRAQRQEILSSNIANADTPGFQARDIDFSSQLKKVMEQGRANGTGVSL 65

Query: 67  NAKVTDSRHFQFGTGTIVPTATVSTDE-------TTSXXXXXXXXXXXREQALSAENQLR 119
           +  +T +RH        +P  TV   +                     RE+   A+N L+
Sbjct: 66  S--LTSARH--------IPATTVQPPDLDLLFRIPDQPAMDGNTVDMDRERTNFADNSLK 115

Query: 120 YNSYVAQLNSQITMMRTVVE 139
           Y + +  L  QI  M +V++
Sbjct: 116 YQTDLTILGGQIKGMMSVLQ 135


>STM1364 [R] COG0628 Predicted permease
          Length = 372

 Score = 47.0 bits (110), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 5/107 (4%), Positives = 14/107 (13%), Gaps = 6/107 (5%)

Query: 14  SFQRLQGGLDAATKRQSVLANNVANADTPNFKRSDVNFESYLQQQENGLKSTLNAKVTDS 73
              R    +  +    +++         P            +      LK          
Sbjct: 5   RQPRDIAQVLLSVLFLAIMIVACLWIVQPFILGFAWAGTIVIATWPVLLKLQ----KILW 60

Query: 74  RHFQFGTGTIVPTATVSTDETTSXXXXXXXXXXXREQALSAENQLRY 120
                    +     +                      + A      
Sbjct: 61  GRRSLAVLVMTLLLVL--LFVIPVALLVNSIVDGSGPLIHAVTGGDM 105


  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
   0.311    0.125    0.335 

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: 8,135,343
Number of extensions: 228904
Number of successful extensions: 317
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 316
Number of HSP's successfully gapped: 2
Length of query: 141
Length of database: 38,378,431
Length adjustment: 96
Effective length of query: 45
Effective length of database: 27,306,367
Effective search space: 1228786515
Effective search space used: 1228786515
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 (21.9 bits)
S2: 110 (47.0 bits)