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= 0090.0001.p
         (153 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310477|ref|YP_003774569.1| GntR family transcription regul...   164   4e-42
gi|300310738|ref|YP_003774830.1| transcription regulator protein...    56   1e-09

>gi|300310477|ref|YP_003774569.1| GntR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 236

 Score =  164 bits (414), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 83/102 (81%), Positives = 90/102 (88%)

Query: 6   LDRSRHAAPQVFERLREAIITMQLTPGTVLSRAELALQFGLSQTPIRDALMKLGEEGLVD 65
           LDRSRHAAPQVFE LRE II M+L P TVL RAELA Q+GLSQTPIRDAL+KLGEEGLVD
Sbjct: 16  LDRSRHAAPQVFEHLRELIIGMRLAPATVLQRAELAAQYGLSQTPIRDALIKLGEEGLVD 75

Query: 66  IFPQHATVVRAVDIAMARQAHFLRRSIELEIVHTLAAAPNPA 107
           IFPQHATVV AV++ +ARQAHFLRRSIELEIVHTLAA  + A
Sbjct: 76  IFPQHATVVSAVNVTLARQAHFLRRSIELEIVHTLAAQADAA 117


>gi|300310738|ref|YP_003774830.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 234

 Score = 55.8 bits (133), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 34/114 (29%), Positives = 59/114 (51%), Gaps = 1/114 (0%)

Query: 13  APQVFERLREAIITMQLTPGTVLSRAELALQFGLSQTPIRDALMKLGEEGLVDIFPQHAT 72
           A QV+ RL++ I + +L PG   +  E+A + G+S+TP+RDAL +L  EG +++  +   
Sbjct: 10  AEQVYHRLKDDIFSFRLLPGDNFTETEMAQRQGVSRTPLRDALFRLQREGYLEVGFRRGW 69

Query: 73  VVRAVDIAMARQAHFLRRSIELEIVHTLAAAPNPAPFFXAIVEAIAAGDPVAAQ 126
            V  +D       + LR  +E+  +  L + P  +     +  AI   +P A Q
Sbjct: 70  KVCPIDFDRLDNLYDLRIVLEMAALDKLCSQPEASAELTQL-NAIWLAEPDARQ 122


  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
   0.324    0.136    0.386 

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: 425,501
Number of extensions: 14007
Number of successful extensions: 131
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 130
Number of HSP's successfully gapped: 4
Length of query: 153
Length of database: 1,619,870
Length adjustment: 77
Effective length of query: 76
Effective length of database: 1,255,275
Effective search space: 95400900
Effective search space used: 95400900
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 126 (53.1 bits)