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= 0005.0188.p
         (96 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312337|ref|YP_003776429.1| transcription regulator protein...   119   3e-29
gi|300311134|ref|YP_003775226.1| transcription regulator protein...    64   3e-12
gi|300313928|ref|YP_003778020.1| GntR family transcription regul...    60   4e-11

>gi|300312337|ref|YP_003776429.1| transcription regulator protein
          [Herbaspirillum seropedicae SmR1]
          Length = 469

 Score =  119 bits (299), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 56/71 (78%), Positives = 61/71 (85%)

Query: 12 STLTQRLVQLIRRQISEGVYAPGSRLPSIRDMAKTHDCAKNTIVNAFDYLTALGVLEPRR 71
          +TLT  LVQLIRRQI+EGVYAPGSRLPSIR+MA  H CAKNTIVN FD LTALG+ EPRR
Sbjct: 6  TTLTSTLVQLIRRQIAEGVYAPGSRLPSIREMAARHGCAKNTIVNVFDELTALGLAEPRR 65

Query: 72 GSGFFVCAAAP 82
          G+GFFVC A P
Sbjct: 66 GAGFFVCVAPP 76


>gi|300311134|ref|YP_003775226.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 500

 Score = 63.5 bits (153), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 31/71 (43%), Positives = 46/71 (64%)

Query: 12  STLTQRLVQLIRRQISEGVYAPGSRLPSIRDMAKTHDCAKNTIVNAFDYLTALGVLEPRR 71
            +L +++V+ IR +I + +   G R+PSIR  A T+  ++ T+V A+D L A G LE RR
Sbjct: 38  DSLVEQIVRGIRARIDDKLLRSGMRMPSIRQFADTNQISRFTVVEAYDRLVAQGYLESRR 97

Query: 72  GSGFFVCAAAP 82
           GSGF+V   AP
Sbjct: 98  GSGFYVKERAP 108


>gi|300313928|ref|YP_003778020.1| GntR family transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 472

 Score = 60.1 bits (144), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 29/64 (45%), Positives = 38/64 (59%)

Query: 26 ISEGVYAPGSRLPSIRDMAKTHDCAKNTIVNAFDYLTALGVLEPRRGSGFFVCAAAPAIR 85
          I  G    G RLPS+R  A+ HD   +T+V A++ L A G+L+ RRG+GFFV A A    
Sbjct: 33 IETGELRSGERLPSVRQFAQHHDIGSSTVVEAYEQLVARGMLQARRGAGFFVAARAGQSG 92

Query: 86 QMTV 89
          Q  V
Sbjct: 93 QHAV 96


  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
   0.322    0.132    0.377 

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: 239,760
Number of extensions: 7562
Number of successful extensions: 44
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 44
Number of HSP's successfully gapped: 3
Length of query: 96
Length of database: 1,619,870
Length adjustment: 65
Effective length of query: 31
Effective length of database: 1,312,095
Effective search space: 40674945
Effective search space used: 40674945
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: 123 (52.0 bits)