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= 0088.0010.p
         (161 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312300|ref|YP_003776392.1| LysR family transcription regul...    88   3e-19
gi|300310059|ref|YP_003774151.1| LysR family transcription regul...    82   3e-17

>gi|300312300|ref|YP_003776392.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 305

 Score = 88.2 bits (217), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 49/150 (32%), Positives = 76/150 (50%), Gaps = 5/150 (3%)

Query: 9   NRRDADLALRLSRPDDPGLMARRLGNAGYGLYGHMRWKRTARNKRQFIGYGEALQGGP-- 66
            R +AD+ALR+  P  P L+AR L N  Y +YG   W     ++R FIG     Q  P  
Sbjct: 155 TRGEADIALRMGEPVSPLLVARMLCNVSYSVYGIPAWLERPESERSFIGLD---QESPCR 211

Query: 67  HQAWLAQYADGAPCVMTANDFSLLHQACRTGLGLTILPHFIARGDAELTEFDSGQPPWQR 126
            +AWL    D     +  ND   +  A  +G+GL +LP F+   D  L      + P   
Sbjct: 212 QKAWLESQVDQRRYALRTNDIRAMCHAAMSGIGLALLPRFMVAEDTRLVAIPMPETPPPC 271

Query: 127 ELWLTVHPDLRRSPRVQRIAELVAEIVQER 156
            L+L +H D+RR+PR++  A+ + +++Q +
Sbjct: 272 PLYLVMHSDVRRAPRIRATADFLIDLIQSQ 301


>gi|300310059|ref|YP_003774151.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 283

 Score = 81.6 bits (200), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 51/141 (36%), Positives = 72/141 (51%), Gaps = 6/141 (4%)

Query: 10  RRDADLALRLSRPDDPGLMARRLGNAGYGLYG---HMRWKRTARNKRQFIGYGEALQGGP 66
           RR+ADLALR +RP D  L+ARRLG   + L G    +   R  R     IGY +++   P
Sbjct: 137 RREADLALRFARPQDGELIARRLGVVRFYLCGTADQVAAWRHQRGSAPVIGYDDSVPDIP 196

Query: 67  HQAWLAQYADGAPCVMTANDFSLLHQACRTGLGLTILPHFIARGDAELTEFDSGQPPWQR 126
              WLA +ADG P  + +        A R G+GL +LP ++   + +  E     P   R
Sbjct: 197 ETRWLAAHADGNPVRLRSASLVAQCMAARAGVGLALLPSYLLAPELQTVE---STPQLVR 253

Query: 127 ELWLTVHPDLRRSPRVQRIAE 147
           ELW   H DL+  PR++ + E
Sbjct: 254 ELWAVFHRDLKALPRLRAVLE 274


  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    0.138    0.436 

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: 521,559
Number of extensions: 21915
Number of successful extensions: 71
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 69
Number of HSP's successfully gapped: 2
Length of query: 161
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 83
Effective length of database: 1,250,540
Effective search space: 103794820
Effective search space used: 103794820
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: 127 (53.5 bits)