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= 0030.0171.p
         (117 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310311|ref|YP_003774403.1| AraC family transcription regul...   175   8e-46
gi|300311011|ref|YP_003775103.1| AraC family transcription regul...    62   1e-11
gi|300313525|ref|YP_003777617.1| AraC family transcription regul...    59   1e-10

>gi|300310311|ref|YP_003774403.1| AraC family transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 274

 Score =  175 bits (444), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 85/95 (89%), Positives = 89/95 (93%)

Query: 1  MRAHLTSVCPSAEVDAFQHLPSSVVAFARELSARDLLTAHSHRRGQLLYAVDGVMQVRTP 60
          MRAHLTSVCPSAEVD FQHLPSSVVAFARELSARDLLTAHSHRRGQLLYAV+GVMQVRTP
Sbjct: 1  MRAHLTSVCPSAEVDTFQHLPSSVVAFARELSARDLLTAHSHRRGQLLYAVEGVMQVRTP 60

Query: 61 QGVWLVPPQRALWVPPQVEHEILMLTRERMRGLFF 95
          QGVWLVPP RALWVPPQVEHEILML++  MR L+ 
Sbjct: 61 QGVWLVPPHRALWVPPQVEHEILMLSKVSMRTLYI 95


>gi|300311011|ref|YP_003775103.1| AraC family transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 273

 Score = 62.0 bits (149), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 31/72 (43%), Positives = 41/72 (56%)

Query: 14 VDAFQHLPSSVVAFARELSARDLLTAHSHRRGQLLYAVDGVMQVRTPQGVWLVPPQRALW 73
          +D    +   VVA   +     +   HSHRR QLLY + G+MQV T  G W+VPPQ A+W
Sbjct: 16 IDQVDGIARPVVAAGAQYRHGAVQPWHSHRRAQLLYGLSGLMQVITADGAWVVPPQHAVW 75

Query: 74 VPPQVEHEILML 85
          +P   EH+  ML
Sbjct: 76 IPSGREHQSRML 87


>gi|300313525|ref|YP_003777617.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 298

 Score = 58.9 bits (141), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 27/66 (40%), Positives = 39/66 (59%)

Query: 40  HSHRRGQLLYAVDGVMQVRTPQGVWLVPPQRALWVPPQVEHEILMLTRERMRGLFFVLPN 99
           HSHR+GQL+ A+ G +   T QG+W+VPPQ A+W+PP V H   +    ++  LF     
Sbjct: 37  HSHRKGQLVVALRGAVTCETAQGMWIVPPQSAVWIPPGVPHSNRVTLDGQLCFLFIAPQA 96

Query: 100 HYLPRQ 105
             +P Q
Sbjct: 97  ASMPEQ 102


  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
   0.327    0.137    0.426 

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: 384,380
Number of extensions: 14416
Number of successful extensions: 51
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 51
Number of HSP's successfully gapped: 3
Length of query: 117
Length of database: 1,619,870
Length adjustment: 74
Effective length of query: 43
Effective length of database: 1,269,480
Effective search space: 54587640
Effective search space used: 54587640
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 124 (52.4 bits)