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= 0013.0212.p
         (302 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309661|ref|YP_003773753.1| AraC family transcription regul...   181   5e-47
gi|300310404|ref|YP_003774496.1| AraC family transcription regul...    60   3e-10

>gi|300309661|ref|YP_003773753.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 338

 Score =  181 bits (460), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 106/286 (37%), Positives = 157/286 (54%), Gaps = 9/286 (3%)

Query: 9   TPLEGYNLSPLADVRFLRSNRPLKRMPVLYEPGIVIVAQGRKRGYLGSEVYLYDAQHYLA 68
           T +EG   + + ++   R   P      + +P   ++AQG KR ++G E+Y YD  HYL 
Sbjct: 53  TGVEGMLETAIPNMEIYRITCPSGPKHAVQKPVFAVIAQGSKRIFVGDEIYEYDPMHYLV 112

Query: 69  VSVPVPFSMET-DASEKEPMLAIYLRLDFKVAAELMMQIDDCVGPSAAK-----PRGMVS 122
            SV +P   +    S  EP L + L LD +   EL   I D   P+AA+      RG+  
Sbjct: 113 ASVDLPVVGKVMVTSPDEPYLGLRLELDTQEIGEL---IGDENLPAAAQVSEGAARGLYV 169

Query: 123 TPMETELGISVLRFLEAMNDPLEAEVLGPSLRREIYFRVLTGQQGGTMRAALTMQGQFGK 182
             ++ +L  +VLR L     P +  +L P +RREI +R+L   QG  +R  +    Q  +
Sbjct: 170 NRLDVDLLDAVLRLLRLQERPADVPILAPMIRREILYRLLMNGQGALLRQTVLQDSQMNR 229

Query: 183 ISRAISMIHRSYDEALGIDQLAKEAGMSVPTFHAHFKTVTDTSPLQYLKSTRLHQARLLM 242
           +++AI +I   YD+AL ID +A++  MSV + H HFK VT  SPLQY K+ RL +AR L+
Sbjct: 230 VAKAIRLIKEGYDQALRIDDIARDVHMSVSSLHHHFKLVTAMSPLQYQKNLRLQEARKLI 289

Query: 243 LRNGMTAGAACAQVGYESASQFSREFKRLFGRTPVEEVDRMRKSFA 288
           L    +   A  +VGYES+SQFSRE+ RLFG  P+ +  R ++  A
Sbjct: 290 LTADASVATAAHRVGYESSSQFSREYSRLFGAPPLRDKRRWQEEEA 335


>gi|300310404|ref|YP_003774496.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 344

 Score = 59.7 bits (143), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/97 (27%), Positives = 49/97 (50%)

Query: 182 KISRAISMIHRSYDEALGIDQLAKEAGMSVPTFHAHFKTVTDTSPLQYLKSTRLHQARLL 241
           ++ R ++ +H+  +    + +LA   G S  +F   F      +P +Y+   ++ QAR  
Sbjct: 244 QVGRVLAAVHQHPERDWSVAELAALMGASRSSFIDKFSAAVGETPAKYVARVKMFQARHW 303

Query: 242 MLRNGMTAGAACAQVGYESASQFSREFKRLFGRTPVE 278
           + R G+       ++GY+S + FSR FKR+ G  P E
Sbjct: 304 IAREGLRVAVVANRLGYDSEASFSRAFKRIIGHPPSE 340


  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    0.135    0.385 

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: 913,905
Number of extensions: 36392
Number of successful extensions: 130
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 135
Number of HSP's successfully gapped: 3
Length of query: 302
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 217
Effective length of database: 1,217,395
Effective search space: 264174715
Effective search space used: 264174715
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: 130 (54.7 bits)