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= 0001.0018.p
         (244 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...   467   e-133
gi|300310298|ref|YP_003774390.1| glycerol-3-phosphate regulon re...    77   9e-16

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

 Score =  467 bits (1202), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 225/244 (92%), Positives = 236/244 (96%)

Query: 1   MQDMIREQGPTPLARIAEVLGVTVMTVRRDLAADDSPLICLGGHVLESSPGAGENRYSID 60
           MQ+MIR+ GPTPL+RIA+VLGVTVMTVRRDLA +DSPLICLGGHVLE+SPG  ENRYSID
Sbjct: 28  MQEMIRDHGPTPLSRIADVLGVTVMTVRRDLAGEDSPLICLGGHVLEASPGGSENRYSID 87

Query: 61  READQHAQRKRLACQRAAQRVQEGDSIFIDCGTTMTHLAEALPVDIGLSVICYSLNIANI 120
           READQHAQRKRLACQ AA+RV EGDS+FIDCGTTMTHLAEALP +IGLSVICYSLNIANI
Sbjct: 88  READQHAQRKRLACQHAARRVVEGDSLFIDCGTTMTHLAEALPPEIGLSVICYSLNIANI 147

Query: 121 VSQRPNTQVILLGGLYHPSSASFASEEGVAYLKRLGVNKAFLSAGGVDARRGVSCSNFHE 180
           VSQRPNTQVILLGGLYHPSSASFASEEGVAYLKRLGVNKAFLSAGGVDARRGVSCSNFHE
Sbjct: 148 VSQRPNTQVILLGGLYHPSSASFASEEGVAYLKRLGVNKAFLSAGGVDARRGVSCSNFHE 207

Query: 181 VPIKQAAIASAAECYVVIDQSKLGRFRPAFYSTLEVFSGIVVGGTPEQDQLDLFSDFPIE 240
           VPIKQAAI SAA+CYVVIDQSKLGRFRPAFYSTLEVFSGIVVGGTPEQDQLDLFSDFP+E
Sbjct: 208 VPIKQAAIESAAQCYVVIDQSKLGRFRPAFYSTLEVFSGIVVGGTPEQDQLDLFSDFPLE 267

Query: 241 VVAG 244
           VVAG
Sbjct: 268 VVAG 271


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

 Score = 77.4 bits (189), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 66/241 (27%), Positives = 112/241 (46%), Gaps = 7/241 (2%)

Query: 5   IREQGPTPLARIAEVLGVTVMTVRRDLAAD-DSPLICL--GGHVLESSPGAGENRYSIDR 61
           +R+ G   +  +A+ L VT  TVRRD+ A  D+ L+    GG  L SS    EN     R
Sbjct: 29  VRKHGTISVEELAQQLNVTTQTVRRDVKAMVDASLLARYHGGVGLLSST---ENIAYPQR 85

Query: 62  EADQHAQRKRLACQRAAQRVQEGDSIFIDCGTTMTHLAEALPVDIGLSVICYSLNIANIV 121
           +   HA+ KR   +  A RV +G S+ ++ GTT   +A AL     L V+  +LN+AN +
Sbjct: 86  QV-MHAEAKRRIGRTVAARVPDGCSLILNLGTTTEEVALALQQHKNLHVVTNNLNVANSL 144

Query: 122 SQRPNTQVILLGGLYHPSSASFASEEGVAYLKRLGVNKAFLSAGGVDARRGVSCSNFHEV 181
           +  P  +VI+ GG+          E  + ++++  V+   +    ++    +   +  EV
Sbjct: 145 ASNPALEVIIAGGVVRARDRGIVGEATIDFIRQFKVDIGIIGISSIEMDGVLRDFDAREV 204

Query: 182 PIKQAAIASAAECYVVIDQSKLGRFRPAFYSTLEVFSGIVVGGTPEQDQLDLFSDFPIEV 241
            + Q  I  + + ++V D SK GR      + L     +     P  +   L ++  +EV
Sbjct: 205 KVAQTIIEQSRQVWLVADASKFGRQALVKMAHLSQIDVLFTDAPPPPELAKLLAETDVEV 264

Query: 242 V 242
           V
Sbjct: 265 V 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
   0.320    0.136    0.392 

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: 764,491
Number of extensions: 30468
Number of successful extensions: 87
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 86
Number of HSP's successfully gapped: 2
Length of query: 244
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 161
Effective length of database: 1,226,865
Effective search space: 197525265
Effective search space used: 197525265
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: 129 (54.3 bits)