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= 0001.0046.p
         (198 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310378|ref|YP_003774470.1| transcription regulator protein...   342   2e-95
gi|300310493|ref|YP_003774585.1| transcription regulator protein...    61   5e-11

>gi|300310378|ref|YP_003774470.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 282

 Score =  342 bits (876), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 169/189 (89%), Positives = 178/189 (94%), Gaps = 1/189 (0%)

Query: 1   MPRTRKLNPAEAPAVQTAADHEEDSAAGKTRYAAPALDKGLDILELLSRSEQMLTLNQIS 60
           MPRTRK+NP +A  VQTAA  E+DS++GKTRYAAPALDKGLDILELLSRSEQMLTLNQIS
Sbjct: 1   MPRTRKINPDDAATVQTAA-AEDDSSSGKTRYAAPALDKGLDILELLSRSEQMLTLNQIS 59

Query: 61  RQLGRSVNEIFRMVVTLEQRGYLVADNDHYRLSLKLFELAHHHQPIRSLVSTALPHMREL 120
           RQLGRSVNEIFRMVVTLEQRGYL+ADNDHYRLSLKLFELAHHHQPIRSLVSTALPHMREL
Sbjct: 60  RQLGRSVNEIFRMVVTLEQRGYLIADNDHYRLSLKLFELAHHHQPIRSLVSTALPHMREL 119

Query: 121 ANRSMQSTHLTVYEAGRVIVVAQVDSPERWAFGLKVGALVSLTDTASGHVLLAFRDEAER 180
           A+R++QSTHLTVYEAGRVIVVAQVDSPERWAFGLKVGALVSLTDTASGHVLLAFRDEAER
Sbjct: 120 ASRAVQSTHLTVYEAGRVIVVAQVDSPERWAFGLKVGALVSLTDTASGHVLLAFRDEAER 179

Query: 181 AXFRDAATR 189
           A    A  R
Sbjct: 180 AAMLAAHVR 188


>gi|300310493|ref|YP_003774585.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 263

 Score = 61.2 bits (147), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 42/156 (26%), Positives = 79/156 (50%), Gaps = 2/156 (1%)

Query: 36  ALDKGLDILELLSRSEQMLTLNQISRQLGRSVNEIFRMVVTLEQRGYLV--ADNDHYRLS 93
           +L+KGL +L   +   + +TL  ++   G S +   RMV TLE  GY+        Y+L+
Sbjct: 16  SLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYICKHPKTRRYQLT 75

Query: 94  LKLFELAHHHQPIRSLVSTALPHMRELANRSMQSTHLTVYEAGRVIVVAQVDSPERWAFG 153
            K+ E+ +++     LV  A P + ELAN + ++ +LT    G ++ VA+  + +     
Sbjct: 76  PKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYVARFVASKFIPIH 135

Query: 154 LKVGALVSLTDTASGHVLLAFRDEAERAXFRDAATR 189
           + +G+ + +  TASG   L+  +  E     +++ R
Sbjct: 136 MPIGSRIPMYCTASGRAYLSALEPEEAQAILESSER 171


  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
   0.319    0.130    0.366 

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: 516,709
Number of extensions: 17820
Number of successful extensions: 83
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 81
Number of HSP's successfully gapped: 5
Length of query: 198
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 118
Effective length of database: 1,241,070
Effective search space: 146446260
Effective search space used: 146446260
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: 128 (53.9 bits)