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= 0030.0124.p
         (87 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311734|ref|YP_003775826.1| RNA polymerase sigma-E factor p...   162   4e-42
gi|300311253|ref|YP_003775345.1| RNA polymerase sigma-E factor (...    57   2e-10

>gi|300311734|ref|YP_003775826.1| RNA polymerase sigma-E factor
           protein [Herbaspirillum seropedicae SmR1]
          Length = 186

 Score =  162 bits (411), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 76/87 (87%), Positives = 81/87 (93%)

Query: 1   VEMDQESMVADEFVEPDKQLSEAQLRRHIGGALDRLSFEHRTVMALTYFHGMSYDEIAHT 60
           VEMD E+MV+DE VEP+ QLSE QLRRHIGGAL+RLSFEHRTVM LTYFHGMSY+EIA T
Sbjct: 100 VEMDMETMVSDELVEPEHQLSETQLRRHIGGALERLSFEHRTVMTLTYFHGMSYEEIADT 159

Query: 61  MGCSINTVKTRMFYARQKLKVFLSAYA 87
           MGCSINTVKTRMFYARQKLKVFLSAYA
Sbjct: 160 MGCSINTVKTRMFYARQKLKVFLSAYA 186


>gi|300311253|ref|YP_003775345.1| RNA polymerase sigma-E factor
           (sigma-24) transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 200

 Score = 57.4 bits (137), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 29/76 (38%), Positives = 43/76 (56%), Gaps = 4/76 (5%)

Query: 16  PDKQLSEAQLRRHIGGALDRLSFEHRTVMALTYFHGMSYDEIAHTMGCSINTVKTRMFYA 75
           P+  L+  Q+ + +  A++ L  E RT + L    G+SYDEIA  M C I TV++R+F A
Sbjct: 121 PESMLATKQIAQTVNVAMEALPEELRTAITLREIEGLSYDEIADAMNCPIGTVRSRIFRA 180

Query: 76  R----QKLKVFLSAYA 87
           R    +KL+  L   A
Sbjct: 181 REAIAEKLRPLLDTAA 196


  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
   0.324    0.133    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: 223,228
Number of extensions: 6549
Number of successful extensions: 31
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 31
Number of HSP's successfully gapped: 2
Length of query: 87
Length of database: 1,619,870
Length adjustment: 57
Effective length of query: 30
Effective length of database: 1,349,975
Effective search space: 40499250
Effective search space used: 40499250
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 123 (52.0 bits)