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= 0179.0004.p
         (278 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310430|ref|YP_003774522.1| transcription regulator protein...   137   1e-33
gi|300311078|ref|YP_003775170.1| transcription regulator protein...    67   1e-12

>gi|300310430|ref|YP_003774522.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 286

 Score =  137 bits (345), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 69/162 (42%), Positives = 101/162 (62%)

Query: 7   TVIRFCRTMGCQGLADFKLKLASGVTGTVPVAHSQVHVGDSALDVGVKVVDNTIAAMMEV 66
           TVIRFCR +G +G  DFKLKLA  +   +P A   +   D A D+  K+   +I  ++++
Sbjct: 51  TVIRFCRAIGYEGWHDFKLKLAQSLALALPGADETLAQDDLAADLVNKICSRSINTLLDL 110

Query: 67  RDSLNADTLSKVIEVLSHATRVEFYGFGSCGLVAEDAQQKFFRLGIPSTAYTDPQLQEVS 126
           R+ LN D +   ++VL+ A ++EFYG G+ G+VA DAQ KFFR G+P+ AY+DP +  ++
Sbjct: 111 RNHLNPDAIQLALDVLARANKIEFYGQGTSGIVANDAQHKFFRSGVPTVAYSDPHIHSIA 170

Query: 127 ASLLKNTDVAVIISNSGRLRHLATTVEVAVNSGATIIALAPA 168
           ASLLK  D  V IS  G    L  ++++A   GA II L P+
Sbjct: 171 ASLLKAGDCVVAISQRGGNAALLRSIQLARKGGADIIVLGPS 212


>gi|300311078|ref|YP_003775170.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 294

 Score = 67.0 bits (162), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 54/178 (30%), Positives = 84/178 (47%), Gaps = 26/178 (14%)

Query: 2   GCQGLTVIRFCRTMGCQGLADFKLKLASGVTGTVPVAHSQVHVGDSALDVGVK------- 54
           G    +V RF + MGC+ + +FK  LA  V            VG    D G K       
Sbjct: 49  GVSVASVTRFAKAMGCRDVREFKFLLAQAVA-----------VGQRFFD-GAKTVPSEQP 96

Query: 55  -----VVDNTIAAMMEV-RDSLNADTLSKVIEVLSHATRVEFYGFGS-CGLVAEDAQQKF 107
                VV   I A++E+ R  LNAD L +   +L  A  +  +G G    +++++A+ + 
Sbjct: 97  PELADVVYRDIHAVLELNRAMLNADMLMQAAHLLLGARMIYCFGMGGGSTMMSDEARYRL 156

Query: 108 FRLGIPSTAYTDPQLQEVSASLLKNTDVAVIISNSGRLRHLATTVEVAVNSGATIIAL 165
            RLG P  +Y D  LQ++ A+ L   DV ++ S +G +  L  + EVA   G  +IA+
Sbjct: 157 VRLGRPVASYHDAVLQKMVAATLDKDDVLLVFSTTGSVPELLASCEVAREYGVKLIAI 214


  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    0.132    0.398 

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: 797,231
Number of extensions: 29953
Number of successful extensions: 132
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 130
Number of HSP's successfully gapped: 2
Length of query: 278
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 194
Effective length of database: 1,222,130
Effective search space: 237093220
Effective search space used: 237093220
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: 130 (54.7 bits)