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= 0003.0145.p
         (269 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313159|ref|YP_003777251.1| AraC family transcription regul...   370   e-104
gi|300313797|ref|YP_003777889.1| AraC family transcription regul...    71   1e-13

>gi|300313159|ref|YP_003777251.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 280

 Score =  370 bits (951), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 190/267 (71%), Positives = 212/267 (79%), Gaps = 1/267 (0%)

Query: 3   PSL-HFWRPPALPFFEGRRATGSLSCYAPHTHDSFSIGVVDGGHSIFTLADRSERIFPGD 61
           P+L HFWR PALPF EGRRATGSLSCYAPHTHDSFSIG+VD GHSIF LA+ S+ I PGD
Sbjct: 13  PALQHFWRDPALPFLEGRRATGSLSCYAPHTHDSFSIGIVDAGHSIFALAEHSQPIAPGD 72

Query: 62  VILVRAGDVHSCNPADLQRWSYRMFHLDSSWLATLLAQTPATCGLLSGMPSQVVRSPEAL 121
           V+LVRAGDVH CNPADLQ WSYRMFH++  WL+TLLA+TPAT GL   M SQV+RSP+A+
Sbjct: 73  VVLVRAGDVHCCNPADLQCWSYRMFHIEHGWLSTLLAETPATRGLPERMRSQVLRSPQAV 132

Query: 122 QWLDRMTHALETGHPDLEREVIRCLQHVMRACADACSPAQASDAPEDDGLQRAHDFLLAH 181
           Q LDRMT AL+    +   EVI CLQ +M  CA+AC+   A    +  GL RA+  L  H
Sbjct: 133 QLLDRMTLALDHDASERVAEVITCLQEIMLLCAEACAHDAAPLTEDAHGLGRAYAHLQQH 192

Query: 182 CRDRVSLATLAELAGTSRYQLIRQFRRRFGLTPHALQLDMKIRQARTLLQQGASTVHAAL 241
           CR  VSL  LAE+AG  RYQLIRQFRRR+G+TPHALQLDMKIRQARTLLQQGAS   AA 
Sbjct: 193 CRRSVSLDELAEVAGMGRYQLIRQFRRRYGMTPHALQLDMKIRQARTLLQQGASAADAAY 252

Query: 242 DTGFADQSHFHRAFKSRVAATPLQYRR 268
           DTGFADQSHFHRAFKSRVAATPLQY R
Sbjct: 253 DTGFADQSHFHRAFKSRVAATPLQYTR 279


>gi|300313797|ref|YP_003777889.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 294

 Score = 70.9 bits (172), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 41/97 (42%), Positives = 54/97 (55%), Gaps = 1/97 (1%)

Query: 173 RAHDFLLAHCRDRVSLATLAELAGTSRYQLIRQFRRRFGLTPHALQLDMKIRQARTLLQQ 232
           R  DF+L+H   R+SLA +A  +G SR    R F++ FGL+PHA     +I  A  LL +
Sbjct: 195 RVRDFMLSHLAQRLSLAEIAAQSGLSRAHFSRAFKQSFGLSPHAWLQQQRIALACRLLHE 254

Query: 233 GA-STVHAALDTGFADQSHFHRAFKSRVAATPLQYRR 268
           G  S    AL+ GF+DQSHF R FK      P  + R
Sbjct: 255 GGKSMTTIALECGFSDQSHFSRVFKQVQGMGPAAWLR 291


  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
   0.325    0.135    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: 918,472
Number of extensions: 38460
Number of successful extensions: 211
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 218
Number of HSP's successfully gapped: 2
Length of query: 269
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 185
Effective length of database: 1,222,130
Effective search space: 226094050
Effective search space used: 226094050
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: 130 (54.7 bits)