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= 0171.0006.p
         (397 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312611|ref|YP_003776703.1| TRAP-type uncharacterized trans...   475   e-135

>gi|300312611|ref|YP_003776703.1| TRAP-type uncharacterized
           transport system periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 463

 Score =  475 bits (1223), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 250/459 (54%), Positives = 311/459 (67%), Gaps = 71/459 (15%)

Query: 10  EKTTAPHKHSVSAMKARFVAISWRDLAVSFGPMVLLIVVGVWLAIWLIHPAPPKTITIAT 69
           +K  + +  S + ++ARFVAISWRDLAVSFGP++LLI+VG WL IWLI PAPP +ITIA 
Sbjct: 4   DKKLSAYAPSATRIRARFVAISWRDLAVSFGPIILLILVGAWLVIWLIRPAPPSSITIAA 63

Query: 70  GPENSNFWNVAEKYKKILARDGVTVKIVASEGSLDNLRKLTDPDGDVDVAFVQGGIADSV 129
           GP++SNFW VAE+YK ILARDG+ + IV + GSLDNL++L D D D+DV FVQGG+A +V
Sbjct: 64  GPKDSNFWRVAERYKTILARDGIKLDIVETGGSLDNLKRLVDSDQDIDVGFVQGGLAGAV 123

Query: 130 NIE---SLVSLGSVAYSPVSVFYRNDKV---------VSRLSELTGKSIAIGLQGSGSRV 177
             +   SLVSLGS++Y PVSV+YR+  +         + +LSEL GK IAIG QGSGS V
Sbjct: 124 PADAMGSLVSLGSISYVPVSVYYRSASINAEGKPIPPLRQLSELAGKRIAIGGQGSGSSV 183

Query: 178 LALTLLKASGIEPGGATKLIDMGGDEAADALGKGKIDAAFLMGESAAPATMGNDLH---- 233
           LA TLLKA+G+E GGAT+L+++GGDEAA AL  GKIDAAFLMG+S + ATMG  L     
Sbjct: 184 LAATLLKANGVEAGGATQLLNIGGDEAAQALTSGKIDAAFLMGDSVSVATMGKLLRAPGV 243

Query: 234 ----------------------------------PALSDLLIEAAREVHGKASVLQKAGE 259
                                             PA    LI    E+  +  +     +
Sbjct: 244 RLLDFSQAEAYVRRFRYLNTLKMPMGVFDLARNLPARDTQLIAPTAELVAREDLHPALSD 303

Query: 260 FPAPLAHE---------------------YPISDDAARYYKSGKSFFYRTLPFWLASLVD 298
                AHE                     Y ISDDAARYYKSGK+FFYRTLPFWLASL+D
Sbjct: 304 LLIEAAHEVHGKANVMQKAGEFPAPLEHEYRISDDAARYYKSGKTFFYRTLPFWLASLLD 363

Query: 299 RTMVVLLPIILLLIPGIKLVPLLYGWRIRSRIYKWYGVLITLERGVTTHTKEEQEQMLRQ 358
           R +V++LP+ILLLIPGI+LVP+LYGWR+RSRIY+WYG LI LERG++  + +EQ  +L++
Sbjct: 364 RAVVIVLPVILLLIPGIRLVPMLYGWRVRSRIYRWYGELIALERGISRDSPQEQADILKR 423

Query: 359 LDEIETSVNRMKMPLAFADQFYVLREHIGFVRSRLESGT 397
           LDEIE +VNRMKMPLAFADQFYVLREHIGFVR+RL +G 
Sbjct: 424 LDEIEMAVNRMKMPLAFADQFYVLREHIGFVRARLAAGV 462


  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
   0.319    0.136    0.397 

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: 1,209,037
Number of extensions: 49945
Number of successful extensions: 203
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 201
Number of HSP's successfully gapped: 2
Length of query: 397
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 310
Effective length of database: 1,207,925
Effective search space: 374456750
Effective search space used: 374456750
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 131 (55.1 bits)