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= 0003.0050.p
         (202 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...   342   1e-95
gi|300311331|ref|YP_003775423.1| transcription regulator protein...    58   7e-10

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

 Score =  342 bits (878), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 167/199 (83%), Positives = 178/199 (89%)

Query: 4   MREHYDHNKRHILQAGHALIAQKGYTGVGLAEILAAAQIPKGSFYHYFGSKEQYGRELIE 63
           MREHY  NKR+IL AG ALIAQKGY+ VGL+EILAAA IPKGSFYHYFGSKEQYGRELIE
Sbjct: 1   MREHYGENKRNILMAGRALIAQKGYSSVGLSEILAAAAIPKGSFYHYFGSKEQYGRELIE 60

Query: 64  HYVAGYLDRLDHVLSDRSQGGSARERLLTYWGYWLESQCCEEAEQRCLVVKLSAEVADLS 123
           HYVAGYL+ L+ VL D + G SARERLLTYWGYWLESQCC+E EQRCLVVKLSAEVADLS
Sbjct: 61  HYVAGYLESLERVLGDPAHGASARERLLTYWGYWLESQCCQELEQRCLVVKLSAEVADLS 120

Query: 124 DDMRQVLHGGTQRFIERIAACIEEGIAEGSLHTVLQPLATATMLYQQWLGASLLSKLGRD 183
           +DMRQ LH GTQ FIERIAACI +GIAEGSLHTVL PLATATMLYQQWLGASLLS+L RD
Sbjct: 121 EDMRQALHQGTQAFIERIAACIAQGIAEGSLHTVLHPLATATMLYQQWLGASLLSRLSRD 180

Query: 184 RAPMEAAMLVTRHVLVAPQ 202
           RAPMEAAMLVTR VLV P+
Sbjct: 181 RAPMEAAMLVTRRVLVLPE 199


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

 Score = 57.8 bits (138), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 50/197 (25%), Positives = 84/197 (42%), Gaps = 6/197 (3%)

Query: 2   GRMREHYDHNKRHILQAGHALIAQKGYTGVGLAEILAAAQIPKGSFYHYFGSKEQYGREL 61
           GR RE +D ++   L     + +++GY G  ++++  A Q+ +GS Y  F  K+      
Sbjct: 32  GRPRE-FDADQ--ALDGAVRVFSERGYAGASISDLSEAMQLAQGSLYKAFRDKQSLFLAA 88

Query: 62  IEHYVAGYLDRLDHVLSDRSQGGSARERLLTYWGYWLESQCCEEAEQRCLVVKLSAEVAD 121
           +E Y     ++L   +     G + RERL     ++ ES       Q CLVV  +  +  
Sbjct: 89  LERYRTQRSEKLRRAID---AGATGRERLRNMLLFYAESAQGAAGRQGCLVVSSAVAITG 145

Query: 122 LSDDMRQVLHGGTQRFIERIAACIEEGIAEGSLHTVLQPLATATMLYQQWLGASLLSKLG 181
               +   +     R    +   I +G  +GS+     P +TA +L     G  ++ K G
Sbjct: 146 FEPSVATQIASTLARNEALLGELIRQGQQDGSVAAHADPPSTARLLLCLTQGMRVVGKAG 205

Query: 182 RDRAPMEAAMLVTRHVL 198
           R R  M A + V   VL
Sbjct: 206 RSRKEMLALVEVALKVL 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
   0.321    0.135    0.408 

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: 657,727
Number of extensions: 26208
Number of successful extensions: 109
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 108
Number of HSP's successfully gapped: 3
Length of query: 202
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 121
Effective length of database: 1,236,335
Effective search space: 149596535
Effective search space used: 149596535
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 (21.9 bits)
S2: 128 (53.9 bits)