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= 0016.0025.p
         (223 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311331|ref|YP_003775423.1| transcription regulator protein...   442   e-126
gi|300313616|ref|YP_003777708.1| TetR family transcription regul...    86   3e-18

>gi|300311331|ref|YP_003775423.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 223

 Score =  442 bits (1137), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 221/223 (99%), Positives = 222/223 (99%)

Query: 1   MDIFGSNHFQINIFMPASSSSSAPSSRRRNPGRPREFDADQALDGAVRVFSERGYAGASI 60
           MDIFGSNHFQINIFMPASSSSSAPSSRRRNPGRPREFDADQALDGAVRVFSERGYAGASI
Sbjct: 1   MDIFGSNHFQINIFMPASSSSSAPSSRRRNPGRPREFDADQALDGAVRVFSERGYAGASI 60

Query: 61  SDLSEAMQLAQGSLYKAFRDKQSLFLAALERYRTQRSEKLRRAIDAGATGRERLRNMLLF 120
           SDLSEAMQLAQGSLYKAFRDKQSLFLAALERYRTQRSEKLRRAIDAGATGRERLRNMLLF
Sbjct: 61  SDLSEAMQLAQGSLYKAFRDKQSLFLAALERYRTQRSEKLRRAIDAGATGRERLRNMLLF 120

Query: 121 YAESAQGAAGRQGCLVVSSAVAITGFEPSVATQIASTLARNEALLGELIRQGQQDGSVAA 180
           YAESAQGAAGRQGCLVVSSAVAITGFEPSVATQIASTLARNEALLGELIRQGQQDGSVAA
Sbjct: 121 YAESAQGAAGRQGCLVVSSAVAITGFEPSVATQIASTLARNEALLGELIRQGQQDGSVAA 180

Query: 181 HADPASTARLLLCLTQGMRVVGKAGRSRKEMLALVDVALKVLD 223
           HADP STARLLLCLTQGMRVVGKAGRSRKEMLALV+VALKVLD
Sbjct: 181 HADPPSTARLLLCLTQGMRVVGKAGRSRKEMLALVEVALKVLD 223


>gi|300313616|ref|YP_003777708.1| TetR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 210

 Score = 85.9 bits (211), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 72/204 (35%), Positives = 104/204 (50%), Gaps = 12/204 (5%)

Query: 29  RNPGRPREFDADQALDGAVRVFSERGYAGASISDLSEAMQLAQGSLYKAFRDKQSLFLAA 88
           R  GRPR FD DQAL  A++VF  +GY G +++DL+EA+ +   SLY AF DK +LF   
Sbjct: 3   RTRGRPRSFDRDQALQQAMQVFWSKGYEGTTMADLTEAIGVKAPSLYAAFGDKDALFREV 62

Query: 89  LERY-RTQRSEKLRRAIDAGATGRERLRNML-----LFYAES-AQGAAGRQGCLVVSSAV 141
           +E Y RT  +E L R + AG   RE L+ ML     ++  +S   G    +GC+VV SA+
Sbjct: 63  VEVYARTVSAEPL-RLLQAGKGIREDLQAMLRASVRMYSGKSTVPGLPAGKGCMVVISAI 121

Query: 142 --AITGFEPSVATQIASTLARNEALLGELIRQGQQDGSVAAHADPASTARLLLCLTQGMR 199
             A    E S A        RNE  +   + Q Q++G + A AD  +          G+ 
Sbjct: 122 NCAPENSEHSDALSQRRHKRRNE--IRARLLQAQREGEIRADADVTALGDFYTSFLNGLA 179

Query: 200 VVGKAGRSRKEMLALVDVALKVLD 223
           +  K G S   + A +  A+  L+
Sbjct: 180 LGAKDGVSSARLAATLGPAMLPLE 203


  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    0.131    0.356 

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: 536,570
Number of extensions: 19238
Number of successful extensions: 119
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 119
Number of HSP's successfully gapped: 3
Length of query: 223
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 141
Effective length of database: 1,231,600
Effective search space: 173655600
Effective search space used: 173655600
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)