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= 0117.0027.p
         (194 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310906|ref|YP_003774998.1| LysR family transcription regul...    78   4e-16
gi|300312645|ref|YP_003776737.1| LysR family transcription regul...    78   6e-16
gi|300313964|ref|YP_003778056.1| LysR family transcription regul...    77   8e-16
gi|300312894|ref|YP_003776986.1| LysR family transcription regul...    77   8e-16
gi|300309845|ref|YP_003773937.1| LysR family transcription regul...    77   1e-15

>gi|300310906|ref|YP_003774998.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 300

 Score = 78.2 bits (191), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 45/86 (52%), Positives = 57/86 (66%), Gaps = 1/86 (1%)

Query: 38  MTARTLPSLNALRAFEAAARHQSFTLAAQELHVTQGAVSHQVKALEEELGAVLFERLSNQ 97
           M   TLP LNA+RAF AAARHQSFTLAA EL+VT GA+S Q+K LE  LG  LFER + Q
Sbjct: 1   MADLTLP-LNAIRAFLAAARHQSFTLAAHELNVTHGAISRQIKNLEGYLGMPLFERRTRQ 59

Query: 98  LRLTVAGQRYLVVVGDAFDRIESGTR 123
           + LT  G+++      A + + +  R
Sbjct: 60  VLLTERGRQFFEEASPALEILANAAR 85


>gi|300312645|ref|YP_003776737.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 287

 Score = 77.8 bits (190), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 45/73 (61%), Positives = 49/73 (67%)

Query: 46  LNALRAFEAAARHQSFTLAAQELHVTQGAVSHQVKALEEELGAVLFERLSNQLRLTVAGQ 105
           LNALRAFE +ARH SFT AA+EL VTQ AVS QVK LE+ LG  LF RL   L LT  G 
Sbjct: 5   LNALRAFEVSARHLSFTRAAEELSVTQTAVSMQVKNLEQRLGVALFRRLPRGLALTDEGL 64

Query: 106 RYLVVVGDAFDRI 118
             L VV  +F RI
Sbjct: 65  ALLPVVAQSFGRI 77


>gi|300313964|ref|YP_003778056.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 314

 Score = 77.4 bits (189), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 44/76 (57%), Positives = 50/76 (65%)

Query: 43  LPSLNALRAFEAAARHQSFTLAAQELHVTQGAVSHQVKALEEELGAVLFERLSNQLRLTV 102
           LP L ALRAFEA AR  SFT AA ELHVTQ AVS QV+ LE  L   LF RL+ ++ LT 
Sbjct: 4   LPPLTALRAFEATARLLSFTAAADELHVTQSAVSRQVRILEAHLEQKLFVRLTRRIELTR 63

Query: 103 AGQRYLVVVGDAFDRI 118
           AG  Y   +  AF+RI
Sbjct: 64  AGAAYFQQIRQAFERI 79


>gi|300312894|ref|YP_003776986.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 299

 Score = 77.0 bits (188), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 40/79 (50%), Positives = 55/79 (69%)

Query: 41  RTLPSLNALRAFEAAARHQSFTLAAQELHVTQGAVSHQVKALEEELGAVLFERLSNQLRL 100
           R +PS ++L AFEAAARH SF  AA+EL +T+GA+S Q+  LE  LG  LFER+ N++RL
Sbjct: 3   RRIPSNSSLMAFEAAARHGSFARAAEELALTEGAISRQISRLEGFLGVTLFERIGNRVRL 62

Query: 101 TVAGQRYLVVVGDAFDRIE 119
              GQRY   V +  +R++
Sbjct: 63  LPHGQRYASHVRETLERLD 81


>gi|300309845|ref|YP_003773937.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 294

 Score = 76.6 bits (187), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 43/80 (53%), Positives = 51/80 (63%)

Query: 43  LPSLNALRAFEAAARHQSFTLAAQELHVTQGAVSHQVKALEEELGAVLFERLSNQLRLTV 102
           +P L +L AFEA AR +SF LAA ELH+T  A+SHQV  LE+ LG  LFER +  + LT 
Sbjct: 2   IPPLTSLMAFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTP 61

Query: 103 AGQRYLVVVGDAFDRIESGT 122
           AGQ YL  V  A   I S T
Sbjct: 62  AGQSYLNRVAGALGAINSAT 81


  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    0.411 

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: 568,858
Number of extensions: 20743
Number of successful extensions: 172
Number of sequences better than 1.0e-08: 16
Number of HSP's gapped: 172
Number of HSP's successfully gapped: 16
Length of query: 194
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 114
Effective length of database: 1,241,070
Effective search space: 141481980
Effective search space used: 141481980
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: 128 (53.9 bits)