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= 0001.3769.p
         (275 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...   416   e-118
gi|300313797|ref|YP_003777889.1| AraC family transcription regul...    67   1e-12

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

 Score =  416 bits (1070), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 204/271 (75%), Positives = 225/271 (83%), Gaps = 3/271 (1%)

Query: 1   MPALQHFWRDPELPFLEGRRATGSLSCYAPHTHDSFSIGIVDGGHSIFALGEQRQAIVPG 60
           MPALQHFWRDP LPFLEGRRATGSLSCYAPHTHDSFSIGIVD GHSIFAL E  Q I PG
Sbjct: 12  MPALQHFWRDPALPFLEGRRATGSLSCYAPHTHDSFSIGIVDAGHSIFALAEHSQPIAPG 71

Query: 61  DVVLVRAGDVHCCNPTELASWSYRMFHLDTGWLARLLDETPATRGLLASLQSQVLRAPQA 120
           DVVLVRAGDVHCCNP +L  WSYRMFH++ GWL+ LL ETPATRGL   ++SQVLR+PQA
Sbjct: 72  DVVLVRAGDVHCCNPADLQCWSYRMFHIEHGWLSTLLAETPATRGLPERMRSQVLRSPQA 131

Query: 121 VHLLDRMTQALEARNADLQAEVITCLHELMLLCAQACVRESALTSPLAEDGDGLQRAHDF 180
           V LLDRMT AL+   ++  AEVITCL E+MLLCA+AC  ++A   PL ED  GL RA+  
Sbjct: 132 VQLLDRMTLALDHDASERVAEVITCLQEIMLLCAEACAHDAA---PLTEDAHGLGRAYAH 188

Query: 181 LLAHCRERIALDTLAELAGTSRYQLIRQFRRRFGLTPHALQLDMKIRQARTLLQQGVSAV 240
           L  HCR  ++LD LAE+AG  RYQLIRQFRRR+G+TPHALQLDMKIRQARTLLQQG SA 
Sbjct: 189 LQQHCRRSVSLDELAEVAGMGRYQLIRQFRRRYGMTPHALQLDMKIRQARTLLQQGASAA 248

Query: 241 AAAYDTGFADQSHFHRAFKSRVAVTPLQYTQ 271
            AAYDTGFADQSHFHRAFKSRVA TPLQYT+
Sbjct: 249 DAAYDTGFADQSHFHRAFKSRVAATPLQYTR 279


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

 Score = 67.4 bits (163), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 37/95 (38%), Positives = 53/95 (55%), Gaps = 1/95 (1%)

Query: 176 RAHDFLLAHCRERIALDTLAELAGTSRYQLIRQFRRRFGLTPHALQLDMKIRQA-RTLLQ 234
           R  DF+L+H  +R++L  +A  +G SR    R F++ FGL+PHA     +I  A R L +
Sbjct: 195 RVRDFMLSHLAQRLSLAEIAAQSGLSRAHFSRAFKQSFGLSPHAWLQQQRIALACRLLHE 254

Query: 235 QGVSAVAAAYDTGFADQSHFHRAFKSRVAVTPLQY 269
            G S    A + GF+DQSHF R FK    + P  +
Sbjct: 255 GGKSMTTIALECGFSDQSHFSRVFKQVQGMGPAAW 289


  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    0.136    0.413 

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: 878,896
Number of extensions: 35977
Number of successful extensions: 212
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 220
Number of HSP's successfully gapped: 2
Length of query: 275
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 191
Effective length of database: 1,222,130
Effective search space: 233426830
Effective search space used: 233426830
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)