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= 0007.0183.p
         (257 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300314068|ref|YP_003778160.1| permease [Herbaspirillum serope...   352   2e-98

>gi|300314068|ref|YP_003778160.1| permease [Herbaspirillum
           seropedicae SmR1]
          Length = 303

 Score =  352 bits (902), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 193/251 (76%), Positives = 217/251 (86%)

Query: 7   NYVILCIGAFVAGLVDAVVGGGGLVLIPTLFSVFPNVAPATLLGTNKVAGVMGTSAAAIN 66
           +Y+ILC  AFVAGL+DAVVGGGGLVL+PTLFSVFP   PATLLGTNKV GVMGTSAAAIN
Sbjct: 53  DYLILCGAAFVAGLIDAVVGGGGLVLVPTLFSVFPTTTPATLLGTNKVTGVMGTSAAAIN 112

Query: 67  FARKVRIHWAAAAPAALAAFALSFSGAYLVTHVPTDMMRKALPFILLAVAIYTLKKKDFG 126
           FARKV + W+   PAA+AAFA SF GAY+VTH+PTD++RKALPF+L+AVA+YTLKKKDFG
Sbjct: 113 FARKVAVRWSTVTPAAMAAFAFSFFGAYVVTHIPTDLIRKALPFVLIAVALYTLKKKDFG 172

Query: 127 QHHAPLLSGGKERLYAILVGAGVGFYDGLFGPGTGSFFVFLFVRIFGYDFLRASAVSKVV 186
             HAP LSG +E  YA L+G  VGFYDG+FGPGTGSF VFLFVR+F YDFL ASA +K V
Sbjct: 173 TTHAPTLSGSREIFYAALIGGAVGFYDGVFGPGTGSFLVFLFVRVFSYDFLSASAAAKFV 232

Query: 187 NIATNLAALVWFSYSGHVIWQLGLLMAVFNIGGSLVGTRLAMKHGSSFVRKLFLFVVSAL 246
           N+ATNLAAL WF YSGHVIWQLGLLMAVFN+ GSLVGT+LAMKHGS FVRKLFL VV  L
Sbjct: 233 NVATNLAALCWFGYSGHVIWQLGLLMAVFNVAGSLVGTKLAMKHGSVFVRKLFLVVVGVL 292

Query: 247 ILKTGYDAFLK 257
           ILK+GYDAFL+
Sbjct: 293 ILKSGYDAFLR 303


  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    0.143    0.433 

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: 686,223
Number of extensions: 26674
Number of successful extensions: 128
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 126
Number of HSP's successfully gapped: 2
Length of query: 257
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 174
Effective length of database: 1,226,865
Effective search space: 213474510
Effective search space used: 213474510
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)