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= 0020.0374.p
         (142 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310501|ref|YP_003774593.1| biopolymer transport ExbD-relat...   287   3e-79
gi|300309939|ref|YP_003774031.1| biopolymer transport ExbD/TolR ...    70   8e-14
gi|300310024|ref|YP_003774116.1| biopolymer transport ExbD/TolR ...    54   4e-09

>gi|300310501|ref|YP_003774593.1| biopolymer transport ExbD-related
           transmembrane protein [Herbaspirillum seropedicae SmR1]
          Length = 142

 Score =  287 bits (734), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 142/142 (100%), Positives = 142/142 (100%)

Query: 1   MNFRKGRPREDLEINLIPFIDVLLVIVIFLMVTTTYSKFTALQLTLPTADAPKALEQPFE 60
           MNFRKGRPREDLEINLIPFIDVLLVIVIFLMVTTTYSKFTALQLTLPTADAPKALEQPFE
Sbjct: 1   MNFRKGRPREDLEINLIPFIDVLLVIVIFLMVTTTYSKFTALQLTLPTADAPKALEQPFE 60

Query: 61  LNIAVDANGRYALNNKRISARDAQGLSEEMQAVVRASASKLDPVIIINADALATHQTVVN 120
           LNIAVDANGRYALNNKRISARDAQGLSEEMQAVVRASASKLDPVIIINADALATHQTVVN
Sbjct: 61  LNIAVDANGRYALNNKRISARDAQGLSEEMQAVVRASASKLDPVIIINADALATHQTVVN 120

Query: 121 VLEAARMAGYPKVTFAAQASSK 142
           VLEAARMAGYPKVTFAAQASSK
Sbjct: 121 VLEAARMAGYPKVTFAAQASSK 142


>gi|300309939|ref|YP_003774031.1| biopolymer transport ExbD/TolR
           protein [Herbaspirillum seropedicae SmR1]
          Length = 148

 Score = 69.7 bits (169), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 44/125 (35%), Positives = 73/125 (58%), Gaps = 11/125 (8%)

Query: 13  EINLIPFIDVLLVIVIFLMVTTTYSKFT-ALQLTLPTADAPKALEQPFELNIAVDANGRY 71
           +IN+ P +DV+LV+++  ++T     FT AL+L LPTA +  A E+P  + + +DA G+ 
Sbjct: 17  DINVTPMVDVMLVLLVIFIITAPM--FTHALKLDLPTAQSAPAPEKPETITLGIDAAGKL 74

Query: 72  ALNNKRISARDAQGLSEEMQAVVRASASKL-DPVIIINADALATHQTVVNVLEAARMAGY 130
             N++ +S       SEE+ A + A+A K   P + + AD    +QT+  V+ AA+ AG 
Sbjct: 75  YWNDQPVS-------SEELDARLTAAAGKQPQPELQLRADKSTRYQTIAEVMSAAQGAGL 127

Query: 131 PKVTF 135
            K+ F
Sbjct: 128 SKLGF 132


>gi|300310024|ref|YP_003774116.1| biopolymer transport ExbD/TolR
           protein [Herbaspirillum seropedicae SmR1]
          Length = 138

 Score = 54.3 bits (129), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 36/131 (27%), Positives = 65/131 (49%), Gaps = 9/131 (6%)

Query: 13  EINLIPFIDVLLVIVIFLMVTTTYSKFTALQLTLPTADAPKALEQPFELNIAVDANGRYA 72
           EIN  P +DV+LV++I  ++T       A+++ LP A +     +P  +N+++DA+G   
Sbjct: 16  EINTTPLVDVMLVLLIIFIITIPVMNH-AVKIDLPKASSQPDQVKPESINLSIDASGNVF 74

Query: 73  LNNKRISARDAQGLSEEMQAVVRASASKL-DPVIIINADALATHQTVVNVLEAARMAGYP 131
            N ++I        S E+   + A+A K   P + + A+    ++ V  V+ AA+  G  
Sbjct: 75  WNEEKID-------SGELSVRIAAAAQKQPQPELHLRAERTTQYEKVAQVMSAAQSGGLA 127

Query: 132 KVTFAAQASSK 142
           K+ F      K
Sbjct: 128 KIGFVTDPDKK 138


  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
   0.320    0.132    0.355 

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: 362,579
Number of extensions: 11876
Number of successful extensions: 50
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 50
Number of HSP's successfully gapped: 4
Length of query: 142
Length of database: 1,619,870
Length adjustment: 76
Effective length of query: 66
Effective length of database: 1,260,010
Effective search space: 83160660
Effective search space used: 83160660
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: 126 (53.1 bits)