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= 0025.0014.p
         (448 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...   652   0.0  

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

 Score =  652 bits (1681), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 319/458 (69%), Positives = 378/458 (82%), Gaps = 12/458 (2%)

Query: 2   EKTTAPRKHSVSAMKARFVAISWRDLAVSFGPMVLLIIVGVWLAIWLIHPAPPKTITIAT 61
           +K  +    S + ++ARFVAISWRDLAVSFGP++LLI+VG WL IWLI PAPP +ITIA 
Sbjct: 4   DKKLSAYAPSATRIRARFVAISWRDLAVSFGPIILLILVGAWLVIWLIRPAPPSSITIAA 63

Query: 62  GPEHSNFWNVAEKYKNILARDGVTVKIVASEGSLDNLRKLVDPDGDVDVAFVQGGIADSV 121
           GP+ SNFW VAE+YK ILARDG+ + IV + GSLDNL++LVD D D+DV FVQGG+A +V
Sbjct: 64  GPKDSNFWRVAERYKTILARDGIKLDIVETGGSLDNLKRLVDSDQDIDVGFVQGGLAGAV 123

Query: 122 DID---SLVSLGSVAYSPVSVFYRNDKV---------VSRLSELTGKSIAIGLQGSGSRV 169
             D   SLVSLGS++Y PVSV+YR+  +         + +LSEL GK IAIG QGSGS V
Sbjct: 124 PADAMGSLVSLGSISYVPVSVYYRSASINAEGKPIPPLRQLSELAGKRIAIGGQGSGSSV 183

Query: 170 LALTLLKASGIEPGGATKLIDMGGDEAADALSKGKIDVAFLMGESAAPATMGKLLRTSGV 229
           LA TLLKA+G+E GGAT+L+++GGDEAA AL+ GKID AFLMG+S + ATMGKLLR  GV
Sbjct: 184 LAATLLKANGVEAGGATQLLNIGGDEAAQALTSGKIDAAFLMGDSVSVATMGKLLRAPGV 243

Query: 230 RLLDFSQASAYTRRFSYLNELTLPPGVFDFRRNLPDHTIRLIAPTAELIARDDLHPALSD 289
           RLLDFSQA AY RRF YLN L +P GVFD  RNLP    +LIAPTAEL+AR+DLHPALSD
Sbjct: 244 RLLDFSQAEAYVRRFRYLNTLKMPMGVFDLARNLPARDTQLIAPTAELVAREDLHPALSD 303

Query: 290 LLIEAAREVHGKASVLQKAGEFPAPLVHEYPISDDAARYYKSGKSFFYRTLPFWLASLVD 349
           LLIEAA EVHGKA+V+QKAGEFPAPL HEY ISDDAARYYKSGK+FFYRTLPFWLASL+D
Sbjct: 304 LLIEAAHEVHGKANVMQKAGEFPAPLEHEYRISDDAARYYKSGKTFFYRTLPFWLASLLD 363

Query: 350 RTMVILLPIILLLIPGIKLVPLLYGWRIRSRIYKWYGVLITLERGVTTHTKEEQEQMLKQ 409
           R +VI+LP+ILLLIPGI+LVP+LYGWR+RSRIY+WYG LI LERG++  + +EQ  +LK+
Sbjct: 364 RAVVIVLPVILLLIPGIRLVPMLYGWRVRSRIYRWYGELIALERGISRDSPQEQADILKR 423

Query: 410 LDEIETSVNRMKMPLAFADQFYVLREHIGFVRSRLESG 447
           LDEIE +VNRMKMPLAFADQFYVLREHIGFVR+RL +G
Sbjct: 424 LDEIEMAVNRMKMPLAFADQFYVLREHIGFVRARLAAG 461


  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
   0.321    0.137    0.401 

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: 1,359,366
Number of extensions: 56037
Number of successful extensions: 198
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 196
Number of HSP's successfully gapped: 1
Length of query: 448
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 360
Effective length of database: 1,203,190
Effective search space: 433148400
Effective search space used: 433148400
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: 132 (55.5 bits)