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= 0027.0041.p
         (184 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312385|ref|YP_003776477.1| SorC family transcription regul...   249   1e-67
gi|300309780|ref|YP_003773872.1| transcription regulator [Herbas...    65   3e-12

>gi|300312385|ref|YP_003776477.1| SorC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 326

 Score =  249 bits (635), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 114/155 (73%), Positives = 135/155 (87%)

Query: 3   FAQNYGGRAHSFPVPAFFDYADTRTALWRERSIKAIRTLQNDAAILLFSIGAAETGSHIH 62
           FAQNYG RAH  PVPAFFDY +TRTALWRE+SIKAIR LQ  A+ILLFSIGA  TGS+IH
Sbjct: 166 FAQNYGARAHHLPVPAFFDYPETRTALWREKSIKAIRDLQERASILLFSIGAEATGSYIH 225

Query: 63  TGGYLDKQDQQDIRRDDVVGDIATVFFRDDGSWRDVALNARSSGPDLDRFQRAAHSICVV 122
           T GYL ++++Q +R + +VGDIATVFFR DGSWRDVA NAR+SGPD+D F RAAH++CVV
Sbjct: 226 TAGYLGEEERQILRDEGLVGDIATVFFRADGSWRDVAFNARNSGPDMDCFTRAAHALCVV 285

Query: 123 SGKGKIPGLRAALLGGFINELVIDEPTARLLVQQL 157
           SG GK+PGL+AAL GGFINEL+IDEP+ARLLV+Q+
Sbjct: 286 SGAGKLPGLKAALRGGFINELIIDEPSARLLVEQI 320


>gi|300309780|ref|YP_003773872.1| transcription regulator
           [Herbaspirillum seropedicae SmR1]
          Length = 320

 Score = 65.1 bits (157), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 68/153 (44%), Gaps = 3/153 (1%)

Query: 4   AQNYGGRAHSFPVPAFFDYADTRTALWRERSIKAIRTLQNDAAILLFSIGAAETGSHIHT 63
           A+  G R +  P P   +    R      R+ K +  L   A +    IG       +H 
Sbjct: 169 AEKLGARFYLLPAPRVAESESDRQQWCNHRAYKIVTGLAERADVTFLGIGTIALQGAMHE 228

Query: 64  GGYLDKQDQQDIRRDDVVGDIATVFFRDDGSWRDVALNARSSGPDL-DRFQRAAHSICVV 122
            G++D  +  +++R   VG++    F  DG     +L+AR + P L  R QR   + C  
Sbjct: 229 DGFIDDGEVAELQRQGAVGEMICHAFDIDGVMLPSSLSARVTTPPLTQRPQRPVIAFC-- 286

Query: 123 SGKGKIPGLRAALLGGFINELVIDEPTARLLVQ 155
            G  K   +RAAL GG++  LV DE  AR  +Q
Sbjct: 287 GGSKKAEAVRAALRGGWLTGLVTDEVCARHALQ 319


  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    0.134    0.393 

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: 541,204
Number of extensions: 19775
Number of successful extensions: 60
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 59
Number of HSP's successfully gapped: 2
Length of query: 184
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 104
Effective length of database: 1,241,070
Effective search space: 129071280
Effective search space used: 129071280
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 (21.7 bits)
S2: 127 (53.5 bits)