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= 0080.0005.p
         (163 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312373|ref|YP_003776465.1| LysR family transcription regul...   263   4e-72
gi|300312785|ref|YP_003776877.1| transcription regulator protein...    56   1e-09

>gi|300312373|ref|YP_003776465.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 305

 Score =  263 bits (673), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 120/163 (73%), Positives = 146/163 (89%)

Query: 1   VTIERPVSGNYVVTKLADYALKLYATPAYLDGHPPVRSVDDLESHAFIGYIDDLVFSEEL 60
           V+IERP+SGNYVVTKL+DY LKLYA+  YL  HPP+ ++DDL  H FIGYIDDLVFSEEL
Sbjct: 143 VSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHTMDDLAQHHFIGYIDDLVFSEEL 202

Query: 61  RYKENIAPEAFRAFRSTSVIAQYTAARSGQALAILPCFLAQQSDDLVPVLPDEVEIKRSF 120
           RYK+ +AP+AFRAFRSTSV+AQYTAA +G+ALAILPCFLAQQS++L PVLP ++ I RSF
Sbjct: 203 RYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCFLAQQSEELAPVLPQQIAITRSF 262

Query: 121 WLVAASEQRHVARVSALWSYLRDCMEPNKEFLMGKSRQMTWIK 163
           WLVA+SEQRHVARVSALWSYLR+C+E N++FLMG+SR+M W++
Sbjct: 263 WLVASSEQRHVARVSALWSYLRECVELNRDFLMGQSRRMRWLE 305


>gi|300312785|ref|YP_003776877.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 297

 Score = 56.2 bits (134), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 46/156 (29%), Positives = 67/156 (42%), Gaps = 20/156 (12%)

Query: 1   VTIERPVSGNYVVTKLADYALKLYATPAYLDGHPPVRSVDDLESHAFIGYIDDLVFSEEL 60
           V + RP     V  +L    L L+A  +YL  H   +SVD L  H  IG      F +E 
Sbjct: 147 VRMFRPAQDALVAKRLGSIELGLHAHQSYLTVHGAPKSVDALADHTLIG------FDQES 200

Query: 61  RYKENIAPE------AFRAFRSTSVIAQYTAARSGQALAILPCFLAQQSDDLVPVLPDEV 114
            Y  N+  +      A  A R+ S +AQ  A R+G  + I    LA +   LV +LP + 
Sbjct: 201 AYVRNVLKQIPWLSRAALALRTDSDLAQLAAIRAGFGIGICQVALAARDVALVRLLPRQF 260

Query: 115 EIKRSFWLVAASEQRHVAR--------VSALWSYLR 142
            +K   W+    + R   R        V+ L +Y+R
Sbjct: 261 ALKMETWVAMHEDLRASPRCAVTFAALVAGLGAYIR 296


  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    0.134    0.401 

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: 511,098
Number of extensions: 18670
Number of successful extensions: 69
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 71
Number of HSP's successfully gapped: 2
Length of query: 163
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 85
Effective length of database: 1,250,540
Effective search space: 106295900
Effective search space used: 106295900
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: 127 (53.5 bits)