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= 0112.0004.p
         (199 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313079|ref|YP_003777171.1| transcription regulator protein...   283   9e-78
gi|300311331|ref|YP_003775423.1| transcription regulator protein...    59   2e-10

>gi|300313079|ref|YP_003777171.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 201

 Score =  283 bits (723), Expect = 9e-78,   Method: Compositional matrix adjust.
 Identities = 139/199 (69%), Positives = 161/199 (80%), Gaps = 1/199 (0%)

Query: 1   MRDTYAETKLSILQAGRRLIAQKGFTGVGLNELLAAADIPKGSFYHYFGSKERYGRELIE 60
           MR+ Y E K +IL AGR LIAQKG++ VGL+E+LAAA IPKGSFYHYFGSKE+YGRELIE
Sbjct: 1   MREHYGENKRNILMAGRALIAQKGYSSVGLSEILAAAAIPKGSFYHYFGSKEQYGRELIE 60

Query: 61  QYVAEYLQTLDQSFSAEAHANTTARERLLTYWGYWLETQCCEIAEHKCLVVKLSAEVADL 120
            YVA YL++L++     AH   +ARERLLTYWGYWLE+QCC+  E +CLVVKLSAEVADL
Sbjct: 61  HYVAGYLESLERVLGDPAH-GASARERLLTYWGYWLESQCCQELEQRCLVVKLSAEVADL 119

Query: 121 SDDMRMALHTGTEAVIARIAEAIRTGVAEGSLHTVLEPYRTAQMLYQMWLGASLLSKLSR 180
           S+DMR ALH GT+A I RIA  I  G+AEGSLHTVL P  TA MLYQ WLGASLLS+LSR
Sbjct: 120 SEDMRQALHQGTQAFIERIAACIAQGIAEGSLHTVLHPLATATMLYQQWLGASLLSRLSR 179

Query: 181 DREALESAMDVSRRVLVAP 199
           DR  +E+AM V+RRVLV P
Sbjct: 180 DRAPMEAAMLVTRRVLVLP 198


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

 Score = 59.3 bits (142), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 43/179 (24%), Positives = 84/179 (46%), Gaps = 4/179 (2%)

Query: 18  RLIAQKGFTGVGLNELLAAADIPKGSFYHYFGSKERYGRELIEQYVAEYLQTLDQSFSAE 77
           R+ +++G+ G  +++L  A  + +GS Y  F  K+      +E+Y  +  + L ++  A 
Sbjct: 48  RVFSERGYAGASISDLSEAMQLAQGSLYKAFRDKQSLFLAALERYRTQRSEKLRRAIDAG 107

Query: 78  AHANTTARERLLTYWGYWLETQCCEIAEHKCLVVKLSAEVADLSDDMRMALHTGTEAVIA 137
           A    T RERL     ++ E+         CLVV  +  +      +   + +      A
Sbjct: 108 A----TGRERLRNMLLFYAESAQGAAGRQGCLVVSSAVAITGFEPSVATQIASTLARNEA 163

Query: 138 RIAEAIRTGVAEGSLHTVLEPYRTAQMLYQMWLGASLLSKLSRDREALESAMDVSRRVL 196
            + E IR G  +GS+    +P  TA++L  +  G  ++ K  R R+ + + ++V+ +VL
Sbjct: 164 LLGELIRQGQQDGSVAAHADPPSTARLLLCLTQGMRVVGKAGRSRKEMLALVEVALKVL 222


  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    0.379 

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: 529,010
Number of extensions: 18416
Number of successful extensions: 74
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 73
Number of HSP's successfully gapped: 2
Length of query: 199
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 118
Effective length of database: 1,236,335
Effective search space: 145887530
Effective search space used: 145887530
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)