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= 0001.0817.p
         (272 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310357|ref|YP_003774449.1| DeoR family transcription repre...   502   e-143
gi|300310298|ref|YP_003774390.1| glycerol-3-phosphate regulon re...    80   2e-16

>gi|300310357|ref|YP_003774449.1| DeoR family transcription
           repressor protein [Herbaspirillum seropedicae SmR1]
          Length = 271

 Score =  502 bits (1292), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 246/272 (90%), Positives = 257/272 (94%), Gaps = 1/272 (0%)

Query: 1   MASITPTPSAKTAQPTLGERSRSLRLSRMQEMIRDQGPTPLARIAEVLGVTVMTVRRDLA 60
           MAS T TPS K AQPTLG RSR+LRL+RMQEMIRD GPTPL+RIA+VLGVTVMTVRRDLA
Sbjct: 1   MAS-TSTPSTKAAQPTLGARSRALRLTRMQEMIRDHGPTPLSRIADVLGVTVMTVRRDLA 59

Query: 61  AEDAPLICLGGHVLEASPGAGESRYSIDREVDQHAQRKRLACQRAAQRVEEGDSLFIDCG 120
            ED+PLICLGGHVLEASPG  E+RYSIDRE DQHAQRKRLACQ AA+RV EGDSLFIDCG
Sbjct: 60  GEDSPLICLGGHVLEASPGGSENRYSIDREADQHAQRKRLACQHAARRVVEGDSLFIDCG 119

Query: 121 TTMTHLAEALPVDIGLSVICYSLNIANIVSQRPNTQVILLGGLYHPSSASFASEEGVAYL 180
           TTMTHLAEALP +IGLSVICYSLNIANIVSQRPNTQVILLGGLYHPSSASFASEEGVAYL
Sbjct: 120 TTMTHLAEALPPEIGLSVICYSLNIANIVSQRPNTQVILLGGLYHPSSASFASEEGVAYL 179

Query: 181 RRLGVNKAFLSAGGVDPRRGVSCSNFHEVPIKQAAIASAAECYVVIDQSKLGRFRPAFYS 240
           +RLGVNKAFLSAGGVD RRGVSCSNFHEVPIKQAAI SAA+CYVVIDQSKLGRFRPAFYS
Sbjct: 180 KRLGVNKAFLSAGGVDARRGVSCSNFHEVPIKQAAIESAAQCYVVIDQSKLGRFRPAFYS 239

Query: 241 TLEVFSGIVVGGTPEQDQLDLFSDFPIEVVAG 272
           TLEVFSGIVVGGTPEQDQLDLFSDFP+EVVAG
Sbjct: 240 TLEVFSGIVVGGTPEQDQLDLFSDFPLEVVAG 271


>gi|300310298|ref|YP_003774390.1| glycerol-3-phosphate regulon
           repressor transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 268

 Score = 79.7 bits (195), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 70/249 (28%), Positives = 115/249 (46%), Gaps = 7/249 (2%)

Query: 25  RLSRMQEMIRDQGPTPLARIAEVLGVTVMTVRRDLAAE-DAPLICL--GGHVLEASPGAG 81
           R   + E +R  G   +  +A+ L VT  TVRRD+ A  DA L+    GG  L +S    
Sbjct: 21  RQQTLLECVRKHGTISVEELAQQLNVTTQTVRRDVKAMVDASLLARYHGGVGLLSST--- 77

Query: 82  ESRYSIDREVDQHAQRKRLACQRAAQRVEEGDSLFIDCGTTMTHLAEALPVDIGLSVICY 141
           E+     R+V  HA+ KR   +  A RV +G SL ++ GTT   +A AL     L V+  
Sbjct: 78  ENIAYPQRQV-MHAEAKRRIGRTVAARVPDGCSLILNLGTTTEEVALALQQHKNLHVVTN 136

Query: 142 SLNIANIVSQRPNTQVILLGGLYHPSSASFASEEGVAYLRRLGVNKAFLSAGGVDPRRGV 201
           +LN+AN ++  P  +VI+ GG+          E  + ++R+  V+   +    ++    +
Sbjct: 137 NLNVANSLASNPALEVIIAGGVVRARDRGIVGEATIDFIRQFKVDIGIIGISSIEMDGVL 196

Query: 202 SCSNFHEVPIKQAAIASAAECYVVIDQSKLGRFRPAFYSTLEVFSGIVVGGTPEQDQLDL 261
              +  EV + Q  I  + + ++V D SK GR      + L     +     P  +   L
Sbjct: 197 RDFDAREVKVAQTIIEQSRQVWLVADASKFGRQALVKMAHLSQIDVLFTDAPPPPELAKL 256

Query: 262 FSDFPIEVV 270
            ++  +EVV
Sbjct: 257 LAETDVEVV 265


  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    0.385 

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: 835,608
Number of extensions: 33409
Number of successful extensions: 117
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 116
Number of HSP's successfully gapped: 2
Length of query: 272
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 188
Effective length of database: 1,222,130
Effective search space: 229760440
Effective search space used: 229760440
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: 130 (54.7 bits)