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= 0001.0504.p
         (263 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309856|ref|YP_003773948.1| repressor transcription regulat...   437   e-124

>gi|300309856|ref|YP_003773948.1| repressor transcription regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 262

 Score =  437 bits (1124), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 225/262 (85%), Positives = 234/262 (89%)

Query: 1   LHSSIEVDGGQASCVPEWRASFFRLPVMRRADRLFQITQYLRGRRLTTARQLAQWLSVSE 60
           +HSSIE  G  +  +PEWRAS F  P MRRADRLFQITQYLRGRRLTTARQLA WLSVSE
Sbjct: 1   MHSSIEAGGHCSGGMPEWRASCFPAPAMRRADRLFQITQYLRGRRLTTARQLATWLSVSE 60

Query: 61  RTVYRDIRDLSLSGVPVDGEAGVGYRIKPGYDLPPLMFNTDEIDALVIGMRMVQAWGGPQ 120
           RT+YRDIRDLSLSGVPVDGEAGVGYRIKPGYDLPPLMFN DEIDALVIGMRMVQAWGGPQ
Sbjct: 61  RTIYRDIRDLSLSGVPVDGEAGVGYRIKPGYDLPPLMFNADEIDALVIGMRMVQAWGGPQ 120

Query: 121 LAASAASALAKVVLALPKEKRDFVEATPLFAPAMQDDCGQGERLEAIRQAISSRHKLLLH 180
           L ASAASALAKVVLALPKEKRDFVEATPLFAPA+ D+CGQGERLEAIRQAI SRHKLLL 
Sbjct: 121 LGASAASALAKVVLALPKEKRDFVEATPLFAPAVPDECGQGERLEAIRQAIGSRHKLLLD 180

Query: 181 YTDAQQRSSQRVVWPLGLAFFGGTWLLAAWCERREDFRSFRLDRVQQMRAQSHYPDRNGR 240
           Y+DAQQR+SQRVVWPL LAFFGGTWLLAAWCE REDFRSFRLDRVQQM  Q HYPDRNGR
Sbjct: 181 YSDAQQRASQRVVWPLALAFFGGTWLLAAWCEAREDFRSFRLDRVQQMSEQGHYPDRNGR 240

Query: 241 RLNDFVRAMQRQARAEQAIQPT 262
           RL DFVRAMQRQ R  +A  P 
Sbjct: 241 RLPDFVRAMQRQVRQARAQGPA 262


  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    0.415 

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: 787,676
Number of extensions: 31141
Number of successful extensions: 118
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 118
Number of HSP's successfully gapped: 1
Length of query: 263
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 180
Effective length of database: 1,226,865
Effective search space: 220835700
Effective search space used: 220835700
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: 129 (54.3 bits)