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= 0134.0003.p
         (112 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313153|ref|YP_003777245.1| transcription regulator protein...   205   6e-55
gi|300313854|ref|YP_003777946.1| LysR family transcription regul...   105   1e-24

>gi|300313153|ref|YP_003777245.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 331

 Score =  205 bits (522), Expect = 6e-55,   Method: Compositional matrix adjust.
 Identities = 91/107 (85%), Positives = 100/107 (93%)

Query: 1   VHDAVMTIVEGGCDLLLCYHHPRQPVQLDSSRYDMLSMGKESVRPYSRCDRTGKPDYVFP 60
           VHDAVMTIVEGGCDLLLCYHHPRQPVQLDSSRYDML+MG E++RPYSRCDR GKPDYVFP
Sbjct: 129 VHDAVMTIVEGGCDLLLCYHHPRQPVQLDSSRYDMLTMGTETLRPYSRCDRNGKPDYVFP 188

Query: 61  GSSKAPLPFLSYTPNAYLGRMVELILTDAKKPLHLEKHYETDMSGGL 107
           GS+KAP+PFLSYT NAYLGRMVEL++ D K+PLHL+KHYETDMS  L
Sbjct: 189 GSAKAPVPFLSYTSNAYLGRMVELMMADTKRPLHLDKHYETDMSESL 235


>gi|300313854|ref|YP_003777946.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 310

 Score =  105 bits (261), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 55/107 (51%), Positives = 74/107 (69%)

Query: 1   VHDAVMTIVEGGCDLLLCYHHPRQPVQLDSSRYDMLSMGKESVRPYSRCDRTGKPDYVFP 60
           VHDAVM +VE  CDLLLCY H +Q + LD+ RYD+LS+GKE +RPY +    G P YV P
Sbjct: 129 VHDAVMALVERNCDLLLCYDHRQQGIALDTERYDVLSLGKEPLRPYVKTLPNGLPKYVLP 188

Query: 61  GSSKAPLPFLSYTPNAYLGRMVELILTDAKKPLHLEKHYETDMSGGL 107
           G+   P PFLSY+P + L R+VE  L  + + +HL + +ETD++ GL
Sbjct: 189 GAPNDPQPFLSYSPYSSLSRIVEKALHSSPRQVHLFRRFETDLAEGL 235


  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
   0.320    0.139    0.428 

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: 369,374
Number of extensions: 13382
Number of successful extensions: 36
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 36
Number of HSP's successfully gapped: 2
Length of query: 112
Length of database: 1,619,870
Length adjustment: 73
Effective length of query: 39
Effective length of database: 1,274,215
Effective search space: 49694385
Effective search space used: 49694385
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 (21.8 bits)
S2: 124 (52.4 bits)