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= 0002.0008.p
         (161 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312365|ref|YP_003776457.1| transcription regulator protein...   318   1e-88
gi|300311177|ref|YP_003775269.1| transcription regulator protein...   149   1e-37

>gi|300312365|ref|YP_003776457.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 158

 Score =  318 bits (815), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 158/158 (100%), Positives = 158/158 (100%)

Query: 4   MDNTQPPLLTEELIDQALLLDHQLCFAMYSASLAMTKAYKKLLAPLDITYPQYLVMMVLW 63
           MDNTQPPLLTEELIDQALLLDHQLCFAMYSASLAMTKAYKKLLAPLDITYPQYLVMMVLW
Sbjct: 1   MDNTQPPLLTEELIDQALLLDHQLCFAMYSASLAMTKAYKKLLAPLDITYPQYLVMMVLW 60

Query: 64  EKDQVTVSELGGRLFLDSGTLTPLLKRMEAMGLLHRTRDAEDERRVLVSLTPAGRALREK 123
           EKDQVTVSELGGRLFLDSGTLTPLLKRMEAMGLLHRTRDAEDERRVLVSLTPAGRALREK
Sbjct: 61  EKDQVTVSELGGRLFLDSGTLTPLLKRMEAMGLLHRTRDAEDERRVLVSLTPAGRALREK 120

Query: 124 AKTVPLQMSCMLPSLDQVKNLVVELKQVRKGLQDAEDK 161
           AKTVPLQMSCMLPSLDQVKNLVVELKQVRKGLQDAEDK
Sbjct: 121 AKTVPLQMSCMLPSLDQVKNLVVELKQVRKGLQDAEDK 158


>gi|300311177|ref|YP_003775269.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 153

 Score =  149 bits (375), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 73/107 (68%), Positives = 86/107 (80%)

Query: 22  LLDHQLCFAMYSASLAMTKAYKKLLAPLDITYPQYLVMMVLWEKDQVTVSELGGRLFLDS 81
           LLD QLCFA+YS SL+M+K Y+KLL  L ITY QYLV+MVLWE+DQ+TVSE+G RL LDS
Sbjct: 13  LLDAQLCFALYSTSLSMSKLYRKLLRDLGITYSQYLVLMVLWEQDQLTVSEIGERLVLDS 72

Query: 82  GTLTPLLKRMEAMGLLHRTRDAEDERRVLVSLTPAGRALREKAKTVP 128
            TLTPLLKRMEA GL+ R R A DER+V++SLT  G  LREKA  +P
Sbjct: 73  ATLTPLLKRMEAQGLVTRERAASDERQVVISLTAEGDTLREKAVELP 119


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.320    0.134    0.378 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 464,068
Number of extensions: 16539
Number of successful extensions: 58
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 58
Number of HSP's successfully gapped: 2
Length of query: 161
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 83
Effective length of database: 1,250,540
Effective search space: 103794820
Effective search space used: 103794820
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 127 (53.5 bits)