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= 0005.0004.p
         (153 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311981|ref|YP_003776073.1| integral membrane protein [Herb...   169   8e-44

>gi|300311981|ref|YP_003776073.1| integral membrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 149

 Score =  169 bits (428), Expect = 8e-44,   Method: Compositional matrix adjust.
 Identities = 88/150 (58%), Positives = 111/150 (74%), Gaps = 5/150 (3%)

Query: 2   MLFAKYLHILGFTVWVGGMFFAYLCLRPVAAAVLQPPARLALWNGVFGKFFTWVWLAIAL 61
           ML AK+ H+LG T+WVGGMFFA++ LRP A AVL P  RL L   V   FF WVW+AIAL
Sbjct: 1   MLIAKFFHLLGLTIWVGGMFFAHMALRP-ALAVLHPEQRLTLMAAVLASFFVWVWIAIAL 59

Query: 62  ILASGLPMMAQMG--KPPVYISGMAGLGILMMLIFAHLFFAPYKRLKRAVAAEDWAXAAG 119
           +L SGL MMA +G    P Y+  M G+G++MMLIFAH+FFAP++RLK A A +DW  AA 
Sbjct: 60  VLGSGLHMMAMLGAGHAPPYVHAMTGIGVVMMLIFAHIFFAPFRRLKLAAAQQDWDRAA- 118

Query: 120 GAALGQIRRIVGINLILGLIVVTLGALGPL 149
             ALGQ+R++V INL+LGL+ + +GALGPL
Sbjct: 119 -RALGQVRQLVSINLLLGLLTIAIGALGPL 147


  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
   0.333    0.146    0.474 

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: 402,219
Number of extensions: 16296
Number of successful extensions: 107
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 105
Number of HSP's successfully gapped: 1
Length of query: 153
Length of database: 1,619,870
Length adjustment: 77
Effective length of query: 76
Effective length of database: 1,255,275
Effective search space: 95400900
Effective search space used: 95400900
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.5 bits)
S2: 126 (53.1 bits)