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= 0007.0121.p
         (258 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313239|ref|YP_003777331.1| transcription regulator protein...   111   5e-26
gi|300311600|ref|YP_003775692.1| transcription regulator protein...    61   8e-11

>gi|300313239|ref|YP_003777331.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 244

 Score =  111 bits (278), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 78/247 (31%), Positives = 131/247 (53%), Gaps = 12/247 (4%)

Query: 5   RSLSVLRLFTLETPAWTVEQIARTLDVSMSTAYRYVLALEEVGLVAASGGGYYILGPAIL 64
           R L VL LF    P   +E I   L  + ++AYRYV  L   GL+     GY + GP ++
Sbjct: 6   RMLEVLTLFKPSQPVIDIELICAQLGYTPASAYRYVRELGNAGLLVKMPRGYAV-GPKVI 64

Query: 65  QLDRQIQLTDPLLLSARPVMNRLAGYAPDGSVVLLCRAFADTVLCIHQVHTKGPQSLISY 124
           +LDR +   DPLL ++R ++  L   A  G  +L+   +  TV+ I Q  +    + +++
Sbjct: 65  ELDRHMTQFDPLLSASRDIVGDLV--AQTGLELLISELYGSTVITILQ-ESGSNDARLNF 121

Query: 125 ERGRPMPLFFGATSRIILAHEPTRRLKRLYE-RHQDQLRSSGLADSWEQFRSQQSQLRKT 183
            RG PM LF  AT+R+ILA+   R+L++ ++    ++LR  G   +W  F     ++RK 
Sbjct: 122 GRGTPMDLFHSATARVILAYLLPRQLRKHFDGASAEELRLVG--SNWRDFSKVMLKIRKD 179

Query: 184 GYAVSFGEIDPDRIGIAVALLGDTRQPIGSLSFVLPGSAAQEHI---PILASVLATGSRD 240
           GY VS GE+D  + GIA  +  + ++ +GS++  L G+  + +      L+ ++   +R 
Sbjct: 180 GYCVSEGELDAGKTGIAAPIFDEKQRILGSIT--LAGNTERVNAFNREFLSGLITDAARK 237

Query: 241 IAAGMQG 247
           I A + G
Sbjct: 238 ITARIAG 244


>gi|300311600|ref|YP_003775692.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 292

 Score = 61.2 bits (147), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 62/232 (26%), Positives = 109/232 (46%), Gaps = 19/232 (8%)

Query: 4   DRSLSVLRLFTLETPAWTVEQIARTLDVSMSTAYRYVLALEEVGLVAAS-GGGYYILGPA 62
           DR L VL          + +QIA  +   +ST YR++ +L++ GL+      G +  GP 
Sbjct: 58  DRVLHVLAGVARAGKPVSAKQIAAMVQQPVSTVYRHLASLKKWGLLQEHMNSGTFEPGPT 117

Query: 63  ILQLDRQIQLTDPLLLSARPVMNRLAGYAPDGSVVLLCRAFADTVLCIHQVHTKGPQSLI 122
            +QL         L+  +R  ++ L   +  G  V L  A    ++CI    +  P    
Sbjct: 118 GVQLAWGFDQNSNLVSQSREEISSLVQRS--GESVGLLVAINGQMVCIAMEESDQPLR-C 174

Query: 123 SYERGRPMPLFFGATSRIILAHEPTRRLKRLYERHQDQLRSSGLADSWEQFRSQQSQL-- 180
           S+ +GR  PL  GA+++ +LA  P R+L       Q +L +  L D  E+  + ++QL  
Sbjct: 175 SFTKGRAHPLLKGASAKSLLAFMP-RKL-------QQKLLTDQLGDKPEELAALETQLEE 226

Query: 181 -RKTGYAVSFGEIDPDRIGIAVALLGDTRQPIGSLSFVLP----GSAAQEHI 227
            R+ GY +S  E+D    G++V ++    +  G+++ + P    G+  QE +
Sbjct: 227 IRRRGYCISESEVDLGVWGVSVPIMTSNGRLEGTITLMAPALRVGNREQELV 278


  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
   0.321    0.136    0.392 

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: 842,729
Number of extensions: 36012
Number of successful extensions: 144
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 143
Number of HSP's successfully gapped: 3
Length of query: 258
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 175
Effective length of database: 1,226,865
Effective search space: 214701375
Effective search space used: 214701375
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 (21.9 bits)
S2: 129 (54.3 bits)