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= 0012.0047.p
         (300 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312842|ref|YP_003776934.1| chloramphenicol-sensitive prote...   566   e-163
gi|300313990|ref|YP_003778082.1| permease [Herbaspirillum serope...    84   2e-17

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

 Score =  566 bits (1460), Expect = e-163,   Method: Compositional matrix adjust.
 Identities = 299/300 (99%), Positives = 299/300 (99%)

Query: 1   MSAMPHHEIGRGVGLSVLASALFALLSGYTRLLAPLDGNDIFGWRILATAVAVLALIAWR 60
           MSAM HHEIGRGVGLSVLASALFALLSGYTRLLAPLDGNDIFGWRILATAVAVLALIAWR
Sbjct: 1   MSAMHHHEIGRGVGLSVLASALFALLSGYTRLLAPLDGNDIFGWRILATAVAVLALIAWR 60

Query: 61  GQLSRLRAACAELLGSPGRCLLLLLMAALLGFQQWLFLWGSVNGQALEVSLGYFLLPLSM 120
           GQLSRLRAACAELLGSPGRCLLLLLMAALLGFQQWLFLWGSVNGQALEVSLGYFLLPLSM
Sbjct: 61  GQLSRLRAACAELLGSPGRCLLLLLMAALLGFQQWLFLWGSVNGQALEVSLGYFLLPLSM 120

Query: 121 VLVGRLLYGERLNLLQRLAVLLACIGVAHEIWMTRSFSWPTLAVALGYPPYFILRRRLQL 180
           VLVGRLLYGERLNLLQRLAVLLACIGVAHEIWMTRSFSWPTLAVALGYPPYFILRRRLQL
Sbjct: 121 VLVGRLLYGERLNLLQRLAVLLACIGVAHEIWMTRSFSWPTLAVALGYPPYFILRRRLQL 180

Query: 181 DSLMIFAVELLILALPALIAVALGDTLATTLRTPAMLLLLPGLGLLSMVALACYLRAGKL 240
           DSLMIFAVELLILALPALIAVALGDTLATTLRTPAMLLLLPGLGLLSMVALACYLRAGKL
Sbjct: 181 DSLMIFAVELLILALPALIAVALGDTLATTLRTPAMLLLLPGLGLLSMVALACYLRAGKL 240

Query: 241 LPMGLFGVLGYVEPILLVLVAIAVLGESLPLAQLGTYVPIWLAVLLTAMHSAKLMRQTPR 300
           LPMGLFGVLGYVEPILLVLVAIAVLGESLPLAQLGTYVPIWLAVLLTAMHSAKLMRQTPR
Sbjct: 241 LPMGLFGVLGYVEPILLVLVAIAVLGESLPLAQLGTYVPIWLAVLLTAMHSAKLMRQTPR 300


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

 Score = 83.6 bits (205), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 84/284 (29%), Positives = 145/284 (51%), Gaps = 16/284 (5%)

Query: 16  SVLASALFALLSGYTRLLAPLDGNDIFGWRILATAVAVLALIAWRGQLSRLRAACAELLG 75
           +V AS L+ L   Y +LL  +   DI   R+  + V ++A++ WR Q   +     E++ 
Sbjct: 4   AVAASILWGLFPLYFKLLKEIPSFDIVVHRLFWSCVFLVAVLTWRRQWRWV----GEVVK 59

Query: 76  SPGRCLLLLLMAALLGFQQWLFLWGSVNGQALEVSLGYFLLPLSMVLVGRLLYGERLNLL 135
            P      LL A LL     L++W    G+ ++ SLGYF+ PL  V +G L+  ER+  L
Sbjct: 60  RPMVVGGFLLSALLLTGNWTLYVWAVNAGRIVDTSLGYFMSPLMSVFMGYLILKERMRPL 119

Query: 136 QRLAVLLACIGVAHEIWMT---RSFSWPTLAVALGYPPYFILRRRLQLDSLMIFAVELLI 192
           Q LAV LA   V   IW+T    S  W +L +AL +  Y +LR+   L +L   ++E L+
Sbjct: 120 QWLAVFLALGAV---IWLTIANGSLPWVSLLIALSFAFYGLLRKTAHLGALEGLSLETLL 176

Query: 193 LALPALIAVALG---DTLATTLRTPAMLLLLPGLGLLSMVALACYLRAGKLLPMGLFGVL 249
           +    L+ + +    D+ A T  + +  +LL   G ++ V L  +    + +P+ + G++
Sbjct: 177 MLPLVLLVLGVDTLRDSNAFTHASTSARILLALSGPITAVPLLLFAHGARRIPLSMLGLM 236

Query: 250 GYVEPILLVLVAIAVLGESLPLAQLGTYVPIWLAVLLTAMHSAK 293
            Y+ P + +L  + + GE+   A+   +  IW A+   A++SA+
Sbjct: 237 QYISPTIQLLGGVLIYGEAFTGARAIGFCVIWAAL---AVYSAE 277


  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
   0.330    0.144    0.440 

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: 669,406
Number of extensions: 19819
Number of successful extensions: 132
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 131
Number of HSP's successfully gapped: 2
Length of query: 300
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 215
Effective length of database: 1,217,395
Effective search space: 261739925
Effective search space used: 261739925
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 (21.9 bits)
S2: 130 (54.7 bits)