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= 0001.3452.p
         (301 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...   396   e-111
gi|300313990|ref|YP_003778082.1| permease [Herbaspirillum serope...    67   2e-12

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

 Score =  396 bits (1018), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 226/294 (76%), Positives = 260/294 (88%)

Query: 1   MNHQDIGRGIGLSVLASSLFAFLSGYTRLLAPLDGTEIFAWRIVITLLCVLGLLAWRGDL 60
           M+H +IGRG+GLSVLAS+LFA LSGYTRLLAPLDG +IF WRI+ T + VL L+AWRG L
Sbjct: 4   MHHHEIGRGVGLSVLASALFALLSGYTRLLAPLDGNDIFGWRILATAVAVLALIAWRGQL 63

Query: 61  PRLRSAMAELLGSPARIALLLLMTALLALQQWLFLWGSVNGRALEVSLGYFLLPLSMVLV 120
            RLR+A AELLGSP R  LLLLM ALL  QQWLFLWGSVNG+ALEVSLGYFLLPLSMVLV
Sbjct: 64  SRLRAACAELLGSPGRCLLLLLMAALLGFQQWLFLWGSVNGQALEVSLGYFLLPLSMVLV 123

Query: 121 GRFHYGEKMDLLQGLAVLCACVGVAHELWMTRAFSWPTLAVALGYPPYFILRRRIRIDSL 180
           GR  YGE+++LLQ LAVL AC+GVAHE+WMTR+FSWPTLAVALGYPPYFILRRR+++DSL
Sbjct: 124 GRLLYGERLNLLQRLAVLLACIGVAHEIWMTRSFSWPTLAVALGYPPYFILRRRLQLDSL 183

Query: 181 LIFAVELMVLALPSLLALATSPRTVATLHTPAMWLLLPGLGVLSMIALTSYLRAGKLLPM 240
           +IFAVEL++LALP+L+A+A       TL TPAM LLLPGLG+LSM+AL  YLRAGKLLPM
Sbjct: 184 MIFAVELLILALPALIAVALGDTLATTLRTPAMLLLLPGLGLLSMVALACYLRAGKLLPM 243

Query: 241 GLFGILGYVEPVLLVLVAMAVLGETLHLAQLGTYVPIWLSVLLTALHSVKLMRR 294
           GLFG+LGYVEP+LLVLVA+AVLGE+L LAQLGTYVPIWL+VLLTA+HS KLMR+
Sbjct: 244 GLFGVLGYVEPILLVLVAIAVLGESLPLAQLGTYVPIWLAVLLTAMHSAKLMRQ 297


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

 Score = 66.6 bits (161), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 71/272 (26%), Positives = 126/272 (46%), Gaps = 13/272 (4%)

Query: 13  SVLASSLFAFLSGYTRLLAPLDGTEIFAWRIVITLLCVLGLLAWRGDLPRLRSAMAELLG 72
           +V AS L+     Y +LL  +   +I   R+  + + ++ +L WR    R    + E++ 
Sbjct: 4   AVAASILWGLFPLYFKLLKEIPSFDIVVHRLFWSCVFLVAVLTWR----RQWRWVGEVVK 59

Query: 73  SPARIALLLLMTALLALQQWLFLWGSVNGRALEVSLGYFLLPLSMVLVGRFHYGEKMDLL 132
            P  +   LL   LL     L++W    GR ++ SLGYF+ PL  V +G     E+M  L
Sbjct: 60  RPMVVGGFLLSALLLTGNWTLYVWAVNAGRIVDTSLGYFMSPLMSVFMGYLILKERMRPL 119

Query: 133 QGLAVLCACVGVAHELWMTRA---FSWPTLAVALGYPPYFILRRRIRIDSLLIFAVE--- 186
           Q LAV  A   V   +W+T A     W +L +AL +  Y +LR+   + +L   ++E   
Sbjct: 120 QWLAVFLALGAV---IWLTIANGSLPWVSLLIALSFAFYGLLRKTAHLGALEGLSLETLL 176

Query: 187 LMVLALPSLLALATSPRTVATLHTPAMWLLLPGLGVLSMIALTSYLRAGKLLPMGLFGIL 246
           ++ L L  L           T  + +  +LL   G ++ + L  +    + +P+ + G++
Sbjct: 177 MLPLVLLVLGVDTLRDSNAFTHASTSARILLALSGPITAVPLLLFAHGARRIPLSMLGLM 236

Query: 247 GYVEPVLLVLVAMAVLGETLHLAQLGTYVPIW 278
            Y+ P + +L  + + GE    A+   +  IW
Sbjct: 237 QYISPTIQLLGGVLIYGEAFTGARAIGFCVIW 268


  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    0.143    0.444 

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: 812,781
Number of extensions: 28144
Number of successful extensions: 173
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 172
Number of HSP's successfully gapped: 2
Length of query: 301
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 216
Effective length of database: 1,217,395
Effective search space: 262957320
Effective search space used: 262957320
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)