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= 0001.3880.p
         (169 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313280|ref|YP_003777372.1| MarR family transcription regul...   273   5e-75
gi|300313304|ref|YP_003777396.1| MarR family transcription regul...    57   8e-10

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

 Score =  273 bits (698), Expect = 5e-75,   Method: Compositional matrix adjust.
 Identities = 138/160 (86%), Positives = 143/160 (89%)

Query: 1   MSTTPHSTDESQLIDLYEHPGHLLRRAQQISVSIFHDEIGGVITPVQYAILRMLSNHPGI 60
           MS  P  +DES L DLYEHPGHLLRRAQQISVSIFHDEIGGV+TPVQYAILRMLSNHPGI
Sbjct: 1   MSRPPSHSDESPLTDLYEHPGHLLRRAQQISVSIFHDEIGGVVTPVQYAILRMLSNHPGI 60

Query: 61  DQVRLAGLVAIDTSTGATVCARLEEKGLLVREVIPHNRRQRALRITPEGERLLQELIPGL 120
           DQV LAGLVAIDTSTGATVCARLEEKGLL+REVIPHNRRQRALR T  GE LL+EL PGL
Sbjct: 61  DQVTLAGLVAIDTSTGATVCARLEEKGLLLREVIPHNRRQRALRTTAAGEALLEELTPGL 120

Query: 121 QRLRKRILAPLEEAEQQQFMLLLDKLVHENNPHSRAPLTR 160
           QRLRKRILAPLEEAEQ+QFM LLDKLV  NNP SRAPL R
Sbjct: 121 QRLRKRILAPLEEAEQRQFMALLDKLVQLNNPQSRAPLAR 160


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

 Score = 57.0 bits (136), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 37/128 (28%), Positives = 66/128 (51%), Gaps = 1/128 (0%)

Query: 21  GHLLRRAQQISVSIFHDEIGGV-ITPVQYAILRMLSNHPGIDQVRLAGLVAIDTSTGATV 79
           G+  RRA    + +F   +    + PV + +L +L  +P I+Q RL+  + +     AT+
Sbjct: 31  GYNCRRAYITIMPLFEKRMAKFELRPVDFTVLSLLKANPDINQKRLSKAINVSPPNLATL 90

Query: 80  CARLEEKGLLVREVIPHNRRQRALRITPEGERLLQELIPGLQRLRKRILAPLEEAEQQQF 139
             RLE++GL++R+  P +RR + L +T  G R+  +       L  +    L +AE+ Q 
Sbjct: 91  LDRLEQRGLVLRQRNPQDRRSQVLALTTAGLRMCTKAEQTAIELELKATEMLSDAERAQL 150

Query: 140 MLLLDKLV 147
           + LL K+ 
Sbjct: 151 IGLLQKMF 158


  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    0.137    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: 551,339
Number of extensions: 21746
Number of successful extensions: 91
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 92
Number of HSP's successfully gapped: 3
Length of query: 169
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 90
Effective length of database: 1,245,805
Effective search space: 112122450
Effective search space used: 112122450
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)