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= 0001.3905.p
         (162 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313304|ref|YP_003777396.1| MarR family transcription regul...   277   3e-76
gi|300313280|ref|YP_003777372.1| MarR family transcription regul...    57   9e-10

>gi|300313304|ref|YP_003777396.1| MarR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 161

 Score =  277 bits (709), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 149/162 (91%), Positives = 156/162 (96%), Gaps = 1/162 (0%)

Query: 1   MLPKKPADFDSDDDAAATSAALDQQLLLSLVGYNCRRAYITIMPLFEKRMAKFELRPVDF 60
           MLPKKPAD    DD AA+SA LDQQLLLSLVGYNCRRAYITIMPLFEKRMAKFELRPVDF
Sbjct: 1   MLPKKPAD-FDSDDDAASSAPLDQQLLLSLVGYNCRRAYITIMPLFEKRMAKFELRPVDF 59

Query: 61  TVLSLLKANPNINQKRLSKAINVSPPNLATLLDKLEQRGLLLRQRNPQDRRSQVLALTTA 120
           TVLSLLKANP+INQKRLSKAINVSPPNLATLLD+LEQRGL+LRQRNPQDRRSQVLALTTA
Sbjct: 60  TVLSLLKANPDINQKRLSKAINVSPPNLATLLDRLEQRGLVLRQRNPQDRRSQVLALTTA 119

Query: 121 GMRMCTKAEQTAIELELKATEMLSDSERAQLIGLLQKMFMPQ 162
           G+RMCTKAEQTAIELELKATEMLSD+ERAQLIGLLQKMF+PQ
Sbjct: 120 GLRMCTKAEQTAIELELKATEMLSDAERAQLIGLLQKMFLPQ 161


>gi|300313280|ref|YP_003777372.1| MarR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 169

 Score = 56.6 bits (135), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 36/128 (28%), Positives = 64/128 (50%), Gaps = 1/128 (0%)

Query: 32  GYNCRRAYITIMPLFEKRMAKFELRPVDFTVLSLLKANPNINQKRLSKAINVSPPNLATL 91
           G+  RRA    + +F   +    + PV + +L +L  +P I+Q  L+  + +     AT+
Sbjct: 21  GHLLRRAQQISVSIFHDEIGGV-VTPVQYAILRMLSNHPGIDQVTLAGLVAIDTSTGATV 79

Query: 92  LDKLEQRGLLLRQRNPQDRRSQVLALTTAGMRMCTKAEQTAIELELKATEMLSDSERAQL 151
             +LE++GLLLR+  P +RR + L  T AG  +  +       L  +    L ++E+ Q 
Sbjct: 80  CARLEEKGLLLREVIPHNRRQRALRTTAAGEALLEELTPGLQRLRKRILAPLEEAEQRQF 139

Query: 152 IGLLQKMF 159
           + LL K+ 
Sbjct: 140 MALLDKLV 147


  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    0.132    0.361 

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: 339,362
Number of extensions: 10598
Number of successful extensions: 57
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 56
Number of HSP's successfully gapped: 2
Length of query: 162
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 84
Effective length of database: 1,250,540
Effective search space: 105045360
Effective search space used: 105045360
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: 127 (53.5 bits)