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= 0228.0007.p
         (317 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...   307   6e-85
gi|300313990|ref|YP_003778082.1| permease [Herbaspirillum serope...    70   2e-13

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

 Score =  307 bits (787), Expect = 6e-85,   Method: Compositional matrix adjust.
 Identities = 179/297 (60%), Positives = 220/297 (74%), Gaps = 1/297 (0%)

Query: 20  SLMNHSETARGIALSVTASLLFALLSAYTSWLTPLDGLDIFAWRILWTLPPALLLIVWRK 79
           S M+H E  RG+ LSV AS LFALLS YT  L PLDG DIF WRIL T    L LI WR 
Sbjct: 2   SAMHHHEIGRGVGLSVLASALFALLSGYTRLLAPLDGNDIFGWRILATAVAVLALIAWRG 61

Query: 80  HGAQLRDAVLALLRSPLQALLFVAMTAMLGVQLWLFLWAPVNGRALEVSLGYFLLPLAMV 139
             ++LR A   LL SP + LL + M A+LG Q WLFLW  VNG+ALEVSLGYFLLPL+MV
Sbjct: 62  QLSRLRAACAELLGSPGRCLLLLLMAALLGFQQWLFLWGSVNGQALEVSLGYFLLPLSMV 121

Query: 140 LIGRFYYHERLDGWQRIAVVCAVIGVLHELWMTQAFSWPTLLVALGYPPYFMMRRRLKLD 199
           L+GR  Y ERL+  QR+AV+ A IGV HE+WMT++FSWPTL VALGYPPYF++RRRL+LD
Sbjct: 122 LVGRLLYGERLNLLQRLAVLLACIGVAHEIWMTRSFSWPTLAVALGYPPYFILRRRLQLD 181

Query: 200 SMVIFIMEIFLLTPVALYTLAISPNFAGVWQRPDMYLMLLPGLGLLSTVALDCYLRASRL 259
           S++IF +E+ +L   AL  +A+    A   + P M L+L   LGLLS VAL CYLRA +L
Sbjct: 182 SLMIFAVELLILALPALIAVALGDTLATTLRTPAMLLLLPG-LGLLSMVALACYLRAGKL 240

Query: 260 LPMGLFGILGYVEPVLLVVVAIILLDETLSAAQLWTYIPIWMSVGFTAIHSVRLMQR 316
           LPMGLFG+LGYVEP+LLV+VAI +L E+L  AQL TY+PIW++V  TA+HS +LM++
Sbjct: 241 LPMGLFGVLGYVEPILLVLVAIAVLGESLPLAQLGTYVPIWLAVLLTAMHSAKLMRQ 297


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

 Score = 70.5 bits (171), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 70/288 (24%), Positives = 134/288 (46%), Gaps = 15/288 (5%)

Query: 34  SVTASLLFALLSAYTSWLTPLDGLDIFAWRILWTLPPALLLIVWRKHGAQLRDAVLALLR 93
           +V AS+L+ L   Y   L  +   DI   R+ W+    + ++ WR+    + + V    +
Sbjct: 4   AVAASILWGLFPLYFKLLKEIPSFDIVVHRLFWSCVFLVAVLTWRRQWRWVGEVV----K 59

Query: 94  SPLQALLFVAMTAMLGVQLWLFLWAPVNGRALEVSLGYFLLPLAMVLIGRFYYHERLDGW 153
            P+    F+    +L     L++WA   GR ++ SLGYF+ PL  V +G     ER+   
Sbjct: 60  RPMVVGGFLLSALLLTGNWTLYVWAVNAGRIVDTSLGYFMSPLMSVFMGYLILKERMRPL 119

Query: 154 QRIAVVCAVIGVLHELWMTQAFSWPTLLVALGYPPYFMMRRRLKLDSMVIFIMEIFLLTP 213
           Q +AV  A+  V+       +  W +LL+AL +  Y ++R+   L ++    +E  L+ P
Sbjct: 120 QWLAVFLALGAVIWLTIANGSLPWVSLLIALSFAFYGLLRKTAHLGALEGLSLETLLMLP 179

Query: 214 VALYTLAI-----SPNFAGVWQRPDMYLMLLPGLGLLSTVALDCYLRASRLLPMGLFGIL 268
           + L  L +     S  F        + L L    G ++ V L  +   +R +P+ + G++
Sbjct: 180 LVLLVLGVDTLRDSNAFTHASTSARILLAL---SGPITAVPLLLFAHGARRIPLSMLGLM 236

Query: 269 GYVEPVLLVVVAIILLDETLSAAQLWTYIPIWMSVGFTAIHSVRLMQR 316
            Y+ P + ++  +++  E  + A+   +  IW ++   A++S   + R
Sbjct: 237 QYISPTIQLLGGVLIYGEAFTGARAIGFCVIWAAL---AVYSAEGLWR 281


  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
   0.331    0.143    0.460 

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: 940,232
Number of extensions: 35099
Number of successful extensions: 181
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 178
Number of HSP's successfully gapped: 2
Length of query: 317
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 232
Effective length of database: 1,217,395
Effective search space: 282435640
Effective search space used: 282435640
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 130 (54.7 bits)