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= 0001.0756.p
         (252 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310298|ref|YP_003774390.1| glycerol-3-phosphate regulon re...   498   e-142
gi|300313730|ref|YP_003777822.1| DeoR family transcription regul...    94   8e-21
gi|300310357|ref|YP_003774449.1| DeoR family transcription repre...    88   7e-19

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

 Score =  498 bits (1281), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 246/251 (98%), Positives = 248/251 (98%)

Query: 1   MLNPRQQTLLECVRKHGTISVEELAQQLNVTTQTVRRDVKAMVDASLLARYHGGVGLLSS 60
           MLNPRQQTLLECVRKHGTISVEELAQQLNVTTQTVRRDVKAMVDASLLARYHGGVGLLSS
Sbjct: 17  MLNPRQQTLLECVRKHGTISVEELAQQLNVTTQTVRRDVKAMVDASLLARYHGGVGLLSS 76

Query: 61  TENIAYPQRQVMHAEAKRRIGQTVAARVPDGCSLILNLGTTTEEVARALQQHKHLHVVTN 120
           TENIAYPQRQVMHAEAKRRIG+TVAARVPDGCSLILNLGTTTEEVA ALQQHK+LHVVTN
Sbjct: 77  TENIAYPQRQVMHAEAKRRIGRTVAARVPDGCSLILNLGTTTEEVALALQQHKNLHVVTN 136

Query: 121 NLNVATSLASNPELEVIIAGGVVRARDRGIVGEATIDFIRQFKVDIGIIGISSIEMDGVL 180
           NLNVA SLASNP LEVIIAGGVVRARDRGIVGEATIDFIRQFKVDIGIIGISSIEMDGVL
Sbjct: 137 NLNVANSLASNPALEVIIAGGVVRARDRGIVGEATIDFIRQFKVDIGIIGISSIEMDGVL 196

Query: 181 RDFDAREVKVAQTIIEQSRQVWLVADASKFGRQALVKMAHLSQIDVLFTDAPPPPELAKL 240
           RDFDAREVKVAQTIIEQSRQVWLVADASKFGRQALVKMAHLSQIDVLFTDAPPPPELAKL
Sbjct: 197 RDFDAREVKVAQTIIEQSRQVWLVADASKFGRQALVKMAHLSQIDVLFTDAPPPPELAKL 256

Query: 241 LAETDVEVVIA 251
           LAETDVEVVIA
Sbjct: 257 LAETDVEVVIA 267


>gi|300313730|ref|YP_003777822.1| DeoR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 267

 Score = 94.4 bits (233), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 69/256 (26%), Positives = 129/256 (50%), Gaps = 9/256 (3%)

Query: 1   MLN-PRQQTLLECVRKHGTISVEELAQQLNVTTQTVRRDVKAMVDASLLARYHGGVGLLS 59
           M+N  R++ LL  + +H  ++VE+    LN +  TVRRD+  + +  +L R  GG   L+
Sbjct: 1   MINHNRRKRLLSLLGEHTALTVEQFCHLLNASAATVRRDIAWLAERDMLTRTRGGAERLA 60

Query: 60  STENIAYPQRQVMHAE------AKRRIGQTVAARVPDGCSLILNLGTTTEEVARALQQHK 113
              +      +   A        KR I +  A    +G ++I+N GTTT  +A  L Q K
Sbjct: 61  QKRSAFALSGETFQASLARQPAQKRAIARHAAEMCDNGETIIINGGTTTFLMAEYLAQ-K 119

Query: 114 HLHVVTNNLNVATSLASNPELEVIIAGGVVRARDRGIVGEATIDFIRQFKVDIGIIGISS 173
            L ++TN+  +A  L +  E ++I+ GG +      I+     D  +        +GI  
Sbjct: 120 RLKILTNSFLMAERLLTTSENQIIVPGGQIYREQNVILSPFENDITQHHYASKMFMGIYG 179

Query: 174 IEMDGVLRDFDAREVKVAQTIIEQSRQVWLVADASKFGRQALVKMAHLSQIDVLFTDAPP 233
           + M G++ + D   ++  + ++ Q+ Q+ ++AD+SKF R+A + +  L++++ L TD   
Sbjct: 180 VSMLGLM-EADPLLIQAEKRLLGQAEQLVVLADSSKFSRKAGLILCGLNRVNCLVTDTGI 238

Query: 234 PPELAKLLAETDVEVV 249
               A+++ +  V+VV
Sbjct: 239 SDAAAQMMEQAGVKVV 254


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

 Score = 88.2 bits (217), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 71/249 (28%), Positives = 115/249 (46%), Gaps = 7/249 (2%)

Query: 5   RQQTLLECVRKHGTISVEELAQQLNVTTQTVRRDVKAMVDASLLARYHGGVGLLSS---T 61
           R   + E +R HG   +  +A  L VT  TVRRD+ A  D+ L+    GG  L +S   +
Sbjct: 24  RLTRMQEMIRDHGPTPLSRIADVLGVTVMTVRRDL-AGEDSPLICL--GGHVLEASPGGS 80

Query: 62  ENIAYPQRQV-MHAEAKRRIGQTVAARVPDGCSLILNLGTTTEEVARALQQHKHLHVVTN 120
           EN     R+   HA+ KR   Q  A RV +G SL ++ GTT   +A AL     L V+  
Sbjct: 81  ENRYSIDREADQHAQRKRLACQHAARRVVEGDSLFIDCGTTMTHLAEALPPEIGLSVICY 140

Query: 121 NLNVATSLASNPELEVIIAGGVVRARDRGIVGEATIDFIRQFKVDIGIIGISSIEMDGVL 180
           +LN+A  ++  P  +VI+ GG+          E  + ++++  V+   +    ++    +
Sbjct: 141 SLNIANIVSQRPNTQVILLGGLYHPSSASFASEEGVAYLKRLGVNKAFLSAGGVDARRGV 200

Query: 181 RDFDAREVKVAQTIIEQSRQVWLVADASKFGRQALVKMAHLSQIDVLFTDAPPPPELAKL 240
              +  EV + Q  IE + Q ++V D SK GR      + L     +     P  +   L
Sbjct: 201 SCSNFHEVPIKQAAIESAAQCYVVIDQSKLGRFRPAFYSTLEVFSGIVVGGTPEQDQLDL 260

Query: 241 LAETDVEVV 249
            ++  +EVV
Sbjct: 261 FSDFPLEVV 269


  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    0.134    0.368 

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: 655,334
Number of extensions: 24530
Number of successful extensions: 145
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 141
Number of HSP's successfully gapped: 3
Length of query: 252
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 169
Effective length of database: 1,226,865
Effective search space: 207340185
Effective search space used: 207340185
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)