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= 0001.4158.p
         (260 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313588|ref|YP_003777680.1| transcription regulation access...   365   e-102

>gi|300313588|ref|YP_003777680.1| transcription regulation accessory
           factor transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 258

 Score =  365 bits (937), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 188/258 (72%), Positives = 207/258 (80%), Gaps = 3/258 (1%)

Query: 1   MLLVDAGNTRIKWAVPDPAAPALGCWRQQGAVDRADFSALVPQWAGLARSGSDLQVCISN 60
           MLL+DAGNTRIKWAVP       G WRQQGAV R +  +L   WA L R     ++C+SN
Sbjct: 2   MLLIDAGNTRIKWAVPSDHPQREGRWRQQGAVARGELQSLAQAWAALDRPQ---RICVSN 58

Query: 61  VAGAALHESLQAILLQVFGPRVIVQWFASTPQRAGLRNGYRHPGQLGCDRFAAAIGARAL 120
           VAG AL ESLQ +L QVFG   +++WFAST +RAGLRNGYR P +LGCDRFAAAIGARAL
Sbjct: 59  VAGPALRESLQQLLQQVFGSGPVIEWFASTLERAGLRNGYRDPARLGCDRFAAAIGARAL 118

Query: 121 FAGEDLLVATCGTATTIDVVSAEGVFEGGMILPGFGTMATSLALNTAQLPRIDGAAPPER 180
           +  E+LLVATCGTATTIDVVSA+GVFEGGMILPGFGTMATSLALNTAQLP+ID   P   
Sbjct: 119 YPDEELLVATCGTATTIDVVSAQGVFEGGMILPGFGTMATSLALNTAQLPQIDEVTPLAG 178

Query: 181 VFADNTVEAIVSGCIAAQVGAIEHALAERRRQRPQASLRCLLAGGAGLLLAPYLALGETP 240
           +FADNTVEAIVSGCIAAQVGAIEHALA R R  P  + RCLLAGGAGL+LAPYL LGETP
Sbjct: 179 IFADNTVEAIVSGCIAAQVGAIEHALAARERAHPHTARRCLLAGGAGLVLAPYLVLGETP 238

Query: 241 LEKVDNLVLIGLQVAMNQ 258
           LEKVDNLVLIGL  AMN 
Sbjct: 239 LEKVDNLVLIGLHTAMNH 256


  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
   0.322    0.136    0.415 

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: 769,523
Number of extensions: 28763
Number of successful extensions: 106
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 105
Number of HSP's successfully gapped: 1
Length of query: 260
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 177
Effective length of database: 1,226,865
Effective search space: 217155105
Effective search space used: 217155105
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)