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= 0250.0028.p
         (326 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313990|ref|YP_003778082.1| permease [Herbaspirillum serope...   374   e-105
gi|300312842|ref|YP_003776934.1| chloramphenicol-sensitive prote...    70   3e-13

>gi|300313990|ref|YP_003778082.1| permease [Herbaspirillum
           seropedicae SmR1]
          Length = 298

 Score =  374 bits (961), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 190/293 (64%), Positives = 238/293 (81%)

Query: 1   MFYAISCFLLWGLFPLYFKLLQDVSSFDIVLQRIFWSLLFLIAVLSWKRQWAWLGAVVRK 60
           M YA++  +LWGLFPLYFKLL+++ SFDIV+ R+FWS +FL+AVL+W+RQW W+G VV++
Sbjct: 1   MLYAVAASILWGLFPLYFKLLKEIPSFDIVVHRLFWSCVFLVAVLTWRRQWRWVGEVVKR 60

Query: 61  PRVLLGFLVSALLLSGNWVLYVWAVNSGRIVDASLGYFMSPLVSVLLGYVILKEKLRPFQ 120
           P V+ GFL+SALLL+GNW LYVWAVN+GRIVD SLGYFMSPL+SV +GY+ILKE++RP Q
Sbjct: 61  PMVVGGFLLSALLLTGNWTLYVWAVNAGRIVDTSLGYFMSPLMSVFMGYLILKERMRPLQ 120

Query: 121 WLAVFMALGAVLWLTWSNGALPWIGLVIAATFGVYGLLRKIAYLGALEGLALETILLAPL 180
           WLAVF+ALGAV+WLT +NG+LPW+ L+IA +F  YGLLRK A+LGALEGL+LET+L+ PL
Sbjct: 121 WLAVFLALGAVIWLTIANGSLPWVSLLIALSFAFYGLLRKTAHLGALEGLSLETLLMLPL 180

Query: 181 VLAILAVTAANGGNGFLQASPMSQVLLVLSGPVTAIPLLLFARAARRIPLSLLGLLQYIS 240
           VL +L V      N F  AS  +++LL LSGP+TA+PLLLFA  ARRIPLS+LGL+QYIS
Sbjct: 181 VLLVLGVDTLRDSNAFTHASTSARILLALSGPITAVPLLLFAHGARRIPLSMLGLMQYIS 240

Query: 241 PTMQLLTGVFIYDEPFDGPRLTGFVVIWVALAVYSVEGLWRLWSAKGRALSAP 293
           PT+QLL GV IY E F G R  GF VIW ALAVYS EGLWR    + ++ + P
Sbjct: 241 PTIQLLGGVLIYGEAFTGARAIGFCVIWAALAVYSAEGLWRYLRTRAQSSAEP 293


>gi|300312842|ref|YP_003776934.1| chloramphenicol-sensitive protein
           [Herbaspirillum seropedicae SmR1]
          Length = 300

 Score = 69.7 bits (169), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 79/269 (29%), Positives = 137/269 (50%), Gaps = 13/269 (4%)

Query: 10  LWGLFPLYFKLLQDVSSFDIVLQRIFWSLLFLIAVLSWKRQWAWLGAVVRK-----PRVL 64
           L+ L   Y +LL  +   DI   RI  + + ++A+++W+ Q + L A   +      R L
Sbjct: 22  LFALLSGYTRLLAPLDGNDIFGWRILATAVAVLALIAWRGQLSRLRAACAELLGSPGRCL 81

Query: 65  LGFLVSALLLSGNWVLYVWAVNSGRIVDASLGYFMSPLVSVLLGYVILKEKLRPFQWLAV 124
           L  L++ALL    W L++W   +G+ ++ SLGYF+ PL  VL+G ++  E+L   Q LAV
Sbjct: 82  LLLLMAALLGFQQW-LFLWGSVNGQALEVSLGYFLLPLSMVLVGRLLYGERLNLLQRLAV 140

Query: 125 FMALGAVLWLTWSNGALPWIGLVIAATFGVYGLLRKIAYLGALEGLALETILLAPLVLAI 184
            +A   V    W   +  W  L +A  +  Y +LR+   L +L   A+E ++LA   L  
Sbjct: 141 LLACIGVAHEIWMTRSFSWPTLAVALGYPPYFILRRRLQLDSLMIFAVELLILALPALIA 200

Query: 185 LAVTAANGGNGFLQA--SPMSQVLLVLSGPVTAIPLLLFARAARRIPLSLLGLLQYISPT 242
           +A+     G+       +P   +LL   G ++ + L  + RA + +P+ L G+L Y+ P 
Sbjct: 201 VAL-----GDTLATTLRTPAMLLLLPGLGLLSMVALACYLRAGKLLPMGLFGVLGYVEPI 255

Query: 243 MQLLTGVFIYDEPFDGPRLTGFVVIWVAL 271
           + +L  + +  E     +L  +V IW+A+
Sbjct: 256 LLVLVAIAVLGESLPLAQLGTYVPIWLAV 284


  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
   0.329    0.144    0.468 

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: 943,194
Number of extensions: 34691
Number of successful extensions: 182
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 181
Number of HSP's successfully gapped: 2
Length of query: 326
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 241
Effective length of database: 1,217,395
Effective search space: 293392195
Effective search space used: 293392195
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 (21.8 bits)
S2: 131 (55.1 bits)