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= 0001.2375.p
         (251 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313880|ref|YP_003777972.1| transcription regulator protein...    90   2e-19
gi|300312279|ref|YP_003776371.1| GntR family transcription regul...    89   3e-19

>gi|300313880|ref|YP_003777972.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 244

 Score = 90.1 bits (222), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 71/238 (29%), Positives = 109/238 (45%), Gaps = 5/238 (2%)

Query: 9   EAQLPRYRWLADIIRDTIDRGLFTDNQALPPERELAEHYEVSRDTVRKALRYMEERGIIY 68
           +A+LP Y  L D++   I    +   Q +P E EL++ Y+V+  TVR+A+  +   G++ 
Sbjct: 8   DARLPLYLQLRDLLATQIRAQKWQPGQPIPSEAELSQTYQVAVGTVRRAIETLMAEGLVE 67

Query: 69  SDHGRGTFVSPAIVRGTT-RFIDSFSQDTGNRGGVPGQRIISIENVGASMAIATLLNIES 127
             HGRGTFV  A    +  RF    S D   R   P   I+S + V A    A  L ++ 
Sbjct: 68  RTHGRGTFVRKARFDNSLFRFFRFESAD--GRPLAPKSVIVSRKLVEAPAQAAEALQLKP 125

Query: 128 GTPLVRVRRVRLIDDAPVGVHDAHLVLPRGSRLTRSQIERSGS-LYKLLTAQYGFDPAEA 186
              ++ + R+R++D  PV   + +L   R   L     E  G  LY L   + G   A A
Sbjct: 126 HAKVIELHRLRMVDGQPVLAENIYLCAQRFKALADKAPEEFGDLLYPLYERECGLIVASA 185

Query: 187 VENLCAGAADADDAQWLDVPVAAPLLICERITLSDRRQPIEYCLMK-YVSSYRYRTRI 243
            E L      A  A+ L +    P+++ ERI      QP+E+   +   S +RY   I
Sbjct: 186 RETLTVETVTAAQAKLLGLTEKTPVVMIERIAFGSDGQPLEWRQSRGAASKFRYSAEI 243


>gi|300312279|ref|YP_003776371.1| GntR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 334

 Score = 89.0 bits (219), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 64/218 (29%), Positives = 110/218 (50%), Gaps = 6/218 (2%)

Query: 13  PRYRWLADIIRDTIDRGLFTDNQALPPERELAEHYEVSRDTVRKALRYMEERGIIYSDHG 72
           P Y+ +  +I   ++ G +   + +P E EL   ++VS+ TVRKA+  +    ++    G
Sbjct: 102 PLYQQIKALIMQRLEAGEWKPGELIPSEVELGSRFKVSQGTVRKAIDELAAENLVVRRQG 161

Query: 73  RGTFVSPAI-VRGTTRFIDSFS-QDTGNRGGVPGQRIISIENVGASMAIATLLNIESGTP 130
           +GTFV+     +   RF+   +  D   R   P  +II ++ V AS  +A  L+++SG  
Sbjct: 162 KGTFVATHHETQAQFRFLRLMADSDEPQR---PENKIIEVKRVRASAEVARQLDMKSGDS 218

Query: 131 LVRVRRVRLIDDAPVGVHDAHLVLPRGSRLTRSQ-IERSGSLYKLLTAQYGFDPAEAVEN 189
           ++ +RRV+  +  P+ + D  L       LT  + +E  G LY L  +++G     A E 
Sbjct: 219 VIFIRRVKSFNGVPIILEDIWLPGAIFKGLTAERLVEYRGPLYGLFESEFGTRMIRAEER 278

Query: 190 LCAGAADADDAQWLDVPVAAPLLICERITLSDRRQPIE 227
           + A  AD D A++L V    PLL  ER + +   +P+E
Sbjct: 279 IRAVGADPDAAEFLGVTPQTPLLSVERASFTYGDKPVE 316


  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    0.137    0.403 

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: 817,444
Number of extensions: 34444
Number of successful extensions: 148
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 144
Number of HSP's successfully gapped: 2
Length of query: 251
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 168
Effective length of database: 1,226,865
Effective search space: 206113320
Effective search space used: 206113320
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: 129 (54.3 bits)