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= 0001.0105.p
         (241 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311922|ref|YP_003776014.1| biopolymer transport protein [H...   477   e-136
gi|300309940|ref|YP_003774032.1| biopolymer transport transmembr...    61   1e-10
gi|300310500|ref|YP_003774592.1| biopolymer transport ExbB-like ...    57   2e-09

>gi|300311922|ref|YP_003776014.1| biopolymer transport protein
           [Herbaspirillum seropedicae SmR1]
          Length = 241

 Score =  477 bits (1228), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 240/241 (99%), Positives = 240/241 (99%)

Query: 1   MSNLEQLLELSRQSMGIIPILALLLLVVLAVSVERFIFFARCLPSGKQIDQALMRADHRN 60
           MSNLEQLLELSRQSMGIIPILALLLLVVLAVSVERFIFFARCLPSGKQIDQALMRADHRN
Sbjct: 1   MSNLEQLLELSRQSMGIIPILALLLLVVLAVSVERFIFFARCLPSGKQIDQALMRADHRN 60

Query: 61  DAALQDIAQRYRATVFGPTLHAAVESRALASGEAMDRYIDEAIVRTMPELDRALWLLGAA 120
           DAALQDIAQRYRATVFGPTLHAAVESRALASGEAMDRYIDEAIVRTMPELDRALWLLGAA
Sbjct: 61  DAALQDIAQRYRATVFGPTLHAAVESRALASGEAMDRYIDEAIVRTMPELDRALWLLGAA 120

Query: 121 ITLGPLIGLLGTIIGITESFNVLGTAGSSSGAVTNGIGHSLLATGCGLLVAIAGVAANSY 180
           ITLGPLIGLLGTIIGITESFNVLGTAGSSSGAVTNGIGHSLLATGCGLLVAIAGVAANSY
Sbjct: 121 ITLGPLIGLLGTIIGITESFNVLGTAGSSSGAVTNGIGHSLLATGCGLLVAIAGVAANSY 180

Query: 181 FSKRVRLALLELDLIKLVFIKQHCLLEESIVLRHNAEAHLAGQGKAAPKRTADVAYAGAA 240
           FSKRVRLALLELDLIKLVFIKQHCLLEESIVLRHNAEAH AGQGKAAPKRTADVAYAGAA
Sbjct: 181 FSKRVRLALLELDLIKLVFIKQHCLLEESIVLRHNAEAHPAGQGKAAPKRTADVAYAGAA 240

Query: 241 S 241
           S
Sbjct: 241 S 241


>gi|300309940|ref|YP_003774032.1| biopolymer transport transmembrane
           protein [Herbaspirillum seropedicae SmR1]
          Length = 231

 Score = 60.8 bits (146), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 44/129 (34%), Positives = 66/129 (51%), Gaps = 9/129 (6%)

Query: 66  DIAQRYRATVFGPTLHAAVESRALASGEAMDRYIDEAIVRTMPELDRALWLLGAAITLGP 125
           DI  R + T   P+L+AA +      GE + R +   I R    L+R L LL +  +  P
Sbjct: 90  DIGTRQQGT---PSLNAATDP-----GELITRTLRREINRVSARLERGLTLLASVGSTAP 141

Query: 126 LIGLLGTIIGITESFNVLGTAGSSS-GAVTNGIGHSLLATGCGLLVAIAGVAANSYFSKR 184
            +GL GT+ GI  +   +  +G+     V   +G +L+ T  GLLVAI  V A + F++ 
Sbjct: 142 FVGLFGTVWGIYHALVAVSASGTVQIDKVAGPVGEALIMTALGLLVAIPAVLAYNAFTRI 201

Query: 185 VRLALLELD 193
            R+ L ELD
Sbjct: 202 NRVVLAELD 210


>gi|300310500|ref|YP_003774592.1| biopolymer transport ExbB-like
           transmembrane protein [Herbaspirillum seropedicae SmR1]
          Length = 201

 Score = 56.6 bits (135), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 47/166 (28%), Positives = 82/166 (49%), Gaps = 5/166 (3%)

Query: 19  PILALLL--LVVLAVSVERFIFFARCLPSGKQIDQALMRADHRNDAALQDIAQRY-RATV 75
           PI  LL+  ++ LA+ +ER ++  R       +   ++R  +++     D+A +  + + 
Sbjct: 11  PIWPLLIASIIGLALVIERLVYLRRSRILPPDLLNQVVRV-YQSGRITDDVADKLEQNSP 69

Query: 76  FGPTLHAAVESRALASGEAMDRYIDEAIVRTMPELDRALWLLGAAITLGPLIGLLGTIIG 135
            G  L A + +   A  E M   I+EA       L+R L  LG   +L PL+GL GT++G
Sbjct: 70  LGHVLAAGLRN-VDAPREVMKEAIEEAGQAAAHRLERFLTTLGTIASLAPLMGLFGTVVG 128

Query: 136 ITESFNVLGTAGSSSGAVTNGIGHSLLATGCGLLVAIAGVAANSYF 181
           + E F     AG++   + +GI  +L  TG GL +A+  +    +F
Sbjct: 129 MIEIFASQNAAGTNPAQLAHGISIALYNTGFGLAIAMPALVFYRHF 174


  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
   0.323    0.137    0.383 

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: 612,210
Number of extensions: 21277
Number of successful extensions: 102
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 102
Number of HSP's successfully gapped: 3
Length of query: 241
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 158
Effective length of database: 1,226,865
Effective search space: 193844670
Effective search space used: 193844670
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 129 (54.3 bits)