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= 0001.0950.p
         (131 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309635|ref|YP_003773727.1| biopolymer transport ExbD/TolR ...    96   9e-22
gi|300311921|ref|YP_003776013.1| biopolymer transport ExbD/TolR ...    91   4e-20

>gi|300309635|ref|YP_003773727.1| biopolymer transport ExbD/TolR
           protein [Herbaspirillum seropedicae SmR1]
          Length = 135

 Score = 95.9 bits (237), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 52/127 (40%), Positives = 83/127 (65%), Gaps = 3/127 (2%)

Query: 5   ETKKARIEIIPMIDIMLFLLVFFAMLTLRMIPASGHLTKLPTSSTAVTI-PAPKLLVEIE 63
           + +KAR+EIIPMID+M+FLLVFF +++L +IPA G  T+LP+SSTA  + P  K ++ I 
Sbjct: 8   KKRKARVEIIPMIDVMMFLLVFFVLISLNVIPALGLKTQLPSSSTAQDLKPQTKAVITIA 67

Query: 64  GDGSVTVAQHHMTPEQLTAQLRQA--DNSKTAVTIAGNQATSLQQVMAVIDAIKNGGVTE 121
            D  + V   + T + LTA+L +   +  K  + I  ++   +Q+++ V+D +K GG   
Sbjct: 68  KDEVIQVDGENTTLDALTARLDKLRHEGEKLNLIINSDRGVEVQRLVDVMDTLKKGGFDS 127

Query: 122 LSLATRK 128
           +S+ATRK
Sbjct: 128 ISIATRK 134


>gi|300311921|ref|YP_003776013.1| biopolymer transport ExbD/TolR
           protein [Herbaspirillum seropedicae SmR1]
          Length = 132

 Score = 90.5 bits (223), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 44/127 (34%), Positives = 80/127 (62%), Gaps = 1/127 (0%)

Query: 2   RYLETKKARIEIIPMIDIMLFLLVFFAMLTLRMIPASGHLTKLPTSSTAVTIPAPKLLVE 61
           RYL++ +  IEIIPMIDIM+FLL+FF +  L+MI  SG    +P +++A T+P+  L + 
Sbjct: 5   RYLQSDEPHIEIIPMIDIMMFLLIFFMVTMLKMIDVSGLKINVPQAASAATLPSKSLTIV 64

Query: 62  IEGDGSVTVAQHHMTPEQLTAQLRQ-ADNSKTAVTIAGNQATSLQQVMAVIDAIKNGGVT 120
           ++  G++      +  + L AQL++ A  +K  V +AG++  SL+ ++ V+D  +  G+ 
Sbjct: 65  VDKTGAMFFEGKPLEHDALVAQLKERAQTAKLEVLVAGDKEVSLENLLHVMDVARAAGIE 124

Query: 121 ELSLATR 127
           ++ +A +
Sbjct: 125 DIGIAAK 131


  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    0.131    0.351 

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: 341,161
Number of extensions: 11429
Number of successful extensions: 55
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 55
Number of HSP's successfully gapped: 2
Length of query: 131
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 56
Effective length of database: 1,264,745
Effective search space: 70825720
Effective search space used: 70825720
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: 125 (52.8 bits)