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= 0001.4593.p
         (298 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...   505   e-144
gi|300312842|ref|YP_003776934.1| chloramphenicol-sensitive prote...    73   2e-14

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

 Score =  505 bits (1300), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 266/298 (89%), Positives = 284/298 (95%)

Query: 1   MPYAVCASILWGLFPLYFKLLKEVPSFDIVVQRLFWSCVFLLAVLAWRRQWRWIVELAKQ 60
           M YAV ASILWGLFPLYFKLLKE+PSFDIVV RLFWSCVFL+AVL WRRQWRW+ E+ K+
Sbjct: 1   MLYAVAASILWGLFPLYFKLLKEIPSFDIVVHRLFWSCVFLVAVLTWRRQWRWVGEVVKR 60

Query: 61  PLVVGGCLLSALLLSGNWTLYVWAVNAGRIVDTSLGYFMSPLMSVFMGYLILKEKMRPLQ 120
           P+VVGG LLSALLL+GNWTLYVWAVNAGRIVDTSLGYFMSPLMSVFMGYLILKE+MRPLQ
Sbjct: 61  PMVVGGFLLSALLLTGNWTLYVWAVNAGRIVDTSLGYFMSPLMSVFMGYLILKERMRPLQ 120

Query: 121 WLAVFLALGAVLWLTIANGSLPWISLLIALTFAFYGLLRKTAHLGALEGLSLETLLMLPL 180
           WLAVFLALGAV+WLTIANGSLPW+SLLIAL+FAFYGLLRKTAHLGALEGLSLETLLMLPL
Sbjct: 121 WLAVFLALGAVIWLTIANGSLPWVSLLIALSFAFYGLLRKTAHLGALEGLSLETLLMLPL 180

Query: 181 VLVILGTDSLRDSNAFTHASTTARILLILSGPITAVPLLLFAHGARRIPLSMLGLIQYIS 240
           VL++LG D+LRDSNAFTHAST+ARILL LSGPITAVPLLLFAHGARRIPLSMLGL+QYIS
Sbjct: 181 VLLVLGVDTLRDSNAFTHASTSARILLALSGPITAVPLLLFAHGARRIPLSMLGLMQYIS 240

Query: 241 PTIQLLAGVLVYDEPFVGARAIGFCVIWAALAVYSAEGLWRYLRSRAQSSVEPSAGGA 298
           PTIQLL GVL+Y E F GARAIGFCVIWAALAVYSAEGLWRYLR+RAQSS EPSAGGA
Sbjct: 241 PTIQLLGGVLIYGEAFTGARAIGFCVIWAALAVYSAEGLWRYLRTRAQSSAEPSAGGA 298


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

 Score = 73.2 bits (178), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 87/288 (30%), Positives = 146/288 (50%), Gaps = 24/288 (8%)

Query: 4   AVCASILWGLFPLYFKLLKEVPSFDIVVQRLFWSCVFLLAVLAWRRQWRWI----VELAK 59
           +V AS L+ L   Y +LL  +   DI   R+  + V +LA++AWR Q   +     EL  
Sbjct: 16  SVLASALFALLSGYTRLLAPLDGNDIFGWRILATAVAVLALIAWRGQLSRLRAACAELLG 75

Query: 60  QPLVVGGCLLSALLLS----GNWTLYVWAVNAGRIVDTSLGYFMSPLMSVFMGYLILKEK 115
            P   G CLL  L+ +      W L++W    G+ ++ SLGYF+ PL  V +G L+  E+
Sbjct: 76  SP---GRCLLLLLMAALLGFQQW-LFLWGSVNGQALEVSLGYFLLPLSMVLVGRLLYGER 131

Query: 116 MRPLQWLAVFLALGAV---LWLTIANGSLPWISLLIALTFAFYGLLRKTAHLGALEGLSL 172
           +  LQ LAV LA   V   +W+T    S  W +L +AL +  Y +LR+   L +L   ++
Sbjct: 132 LNLLQRLAVLLACIGVAHEIWMT---RSFSWPTLAVALGYPPYFILRRRLQLDSLMIFAV 188

Query: 173 ETLLMLPLVLVILGTDSLRDSNAFTHASTTARILLILSGPITAVPLLLFAHGARRIPLSM 232
           E L++    L+ +   +L D+ A T  +    +LL   G ++ V L  +    + +P+ +
Sbjct: 189 ELLILALPALIAV---ALGDTLATTLRTPAMLLLLPGLGLLSMVALACYLRAGKLLPMGL 245

Query: 233 LGLIQYISPTIQLLAGVLVYDEPFVGARAIGFCVIWAAL---AVYSAE 277
            G++ Y+ P + +L  + V  E    A+   +  IW A+   A++SA+
Sbjct: 246 FGVLGYVEPILLVLVAIAVLGESLPLAQLGTYVPIWLAVLLTAMHSAK 293


  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    0.142    0.454 

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: 866,294
Number of extensions: 32320
Number of successful extensions: 157
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 156
Number of HSP's successfully gapped: 2
Length of query: 298
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 213
Effective length of database: 1,217,395
Effective search space: 259305135
Effective search space used: 259305135
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: 130 (54.7 bits)