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= 0012.0031.p
         (233 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313790|ref|YP_003777882.1| permease [Herbaspirillum serope...   379   e-106

>gi|300313790|ref|YP_003777882.1| permease [Herbaspirillum
           seropedicae SmR1]
          Length = 253

 Score =  379 bits (974), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 214/232 (92%), Positives = 223/232 (96%), Gaps = 1/232 (0%)

Query: 1   MNAA-QRNRLQSSGLAFLAAYVDTLGFIALFGLFTAHVTGNFILIGAALADTSQMSILLK 59
           MNAA QRNRLQSS LAFLAAYVDTLGFIALFGLFTAHVTGNFILIGAALAD+SQMSILLK
Sbjct: 20  MNAAAQRNRLQSSTLAFLAAYVDTLGFIALFGLFTAHVTGNFILIGAALADSSQMSILLK 79

Query: 60  FLAFPAFILGVAVARLFIAAIQRRDGRALGWSLLLQLLLLTGFMLCGIAAAPVQSPTAGW 119
           FLAFPAFILGVA ARLFIAAIQRR GRALGWSLLLQL+LL GFM+CG+AAAPVQSPTAGW
Sbjct: 80  FLAFPAFILGVAAARLFIAAIQRRQGRALGWSLLLQLVLLLGFMVCGVAAAPVQSPTAGW 139

Query: 120 VMASGLLGTASMGVHSAISRLLLAHLAPTSLMTGNVTQVVIDVVDMLRGAADAGTTERCI 179
           VMA+GLLGTASMGVHSAISRLLLAHLAPTSLMTGNVTQVVIDVVDMLRGAADAGTTERC+
Sbjct: 140 VMAAGLLGTASMGVHSAISRLLLAHLAPTSLMTGNVTQVVIDVVDMLRGAADAGTTERCV 199

Query: 180 KFVWPVLSFGAGAIAAAFAYHAIGFAGLIVPVLILVAMVVWEFRQPLPAKAA 231
           KFVWPVLSFG GAIAAAFAYHAIGFAGLI PVLILVA++V EFRQPLPA +A
Sbjct: 200 KFVWPVLSFGVGAIAAAFAYHAIGFAGLIAPVLILVALIVAEFRQPLPADSA 251


  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    0.139    0.414 

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: 566,569
Number of extensions: 18232
Number of successful extensions: 111
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 111
Number of HSP's successfully gapped: 1
Length of query: 233
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 151
Effective length of database: 1,231,600
Effective search space: 185971600
Effective search space used: 185971600
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: 129 (54.3 bits)