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= 0001.2648.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...   410   e-116
gi|300309940|ref|YP_003774032.1| biopolymer transport transmembr...    58   6e-10
gi|300310500|ref|YP_003774592.1| biopolymer transport ExbB-like ...    57   1e-09

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

 Score =  410 bits (1053), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 213/241 (88%), Positives = 228/241 (94%)

Query: 1   MSNLEQLLELSRQSMGIIPILALLLLVVLAVSVERFIFFARCLPSGKRIDEALTQADHQN 60
           MSNLEQLLELSRQSMGIIPILALLLLVVLAVSVERFIFFARCLPSGK+ID+AL +ADH+N
Sbjct: 1   MSNLEQLLELSRQSMGIIPILALLLLVVLAVSVERFIFFARCLPSGKQIDQALMRADHRN 60

Query: 61  TAALQDIVQRYRSTIFGPTLQASVESRALASGEAMERYIDESIVRTMPELDRSLWLLGAA 120
            AALQDI QRYR+T+FGPTL A+VESRALASGEAM+RYIDE+IVRTMPELDR+LWLLGAA
Sbjct: 61  DAALQDIAQRYRATVFGPTLHAAVESRALASGEAMDRYIDEAIVRTMPELDRALWLLGAA 120

Query: 121 ITLGPLIGLLGTIIGITESFNVLGTAGSSSGAVTNGIGHSLLATGCGLLVAIAGVAANSY 180
           ITLGPLIGLLGTIIGITESFNVLGTAGSSSGAVTNGIGHSLLATGCGLLVAIAGVAANSY
Sbjct: 121 ITLGPLIGLLGTIIGITESFNVLGTAGSSSGAVTNGIGHSLLATGCGLLVAIAGVAANSY 180

Query: 181 FAKRVRLALLELDLIKLVFIKQHCLYEESIIVRQAADAQGAAQGKSVIKRVADVAYAGAA 240
           F+KRVRLALLELDLIKLVFIKQHCL EESI++R  A+A  A QGK+  KR ADVAYAGAA
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 = 58.2 bits (139), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 79/167 (47%), Gaps = 13/167 (7%)

Query: 32  SVERFI---FFARCLPSGKRID-EALTQADHQNTAALQDIVQRYRSTIFGPTLQASVESR 87
           ++ERF      A    + +R+D E +     +  A   DI  R + T   P+L A+ +  
Sbjct: 52  ALERFWQAPTLADATAAMQRLDSEQIYTPMAERAAEAADIGTRQQGT---PSLNAATDP- 107

Query: 88  ALASGEAMERYIDESIVRTMPELDRSLWLLGAAITLGPLIGLLGTIIGITESFNVLGTAG 147
               GE + R +   I R    L+R L LL +  +  P +GL GT+ GI  +   +  +G
Sbjct: 108 ----GELITRTLRREINRVSARLERGLTLLASVGSTAPFVGLFGTVWGIYHALVAVSASG 163

Query: 148 SSS-GAVTNGIGHSLLATGCGLLVAIAGVAANSYFAKRVRLALLELD 193
           +     V   +G +L+ T  GLLVAI  V A + F +  R+ L ELD
Sbjct: 164 TVQIDKVAGPVGEALIMTALGLLVAIPAVLAYNAFTRINRVVLAELD 210


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

 Score = 57.4 bits (137), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 49/170 (28%), Positives = 85/170 (50%), Gaps = 13/170 (7%)

Query: 19  PILALLL--LVVLAVSVERFIFF--ARCLPSGKRIDEALTQAD--HQNTAALQDIVQRY- 71
           PI  LL+  ++ LA+ +ER ++   +R LP      + L Q    +Q+     D+  +  
Sbjct: 11  PIWPLLIASIIGLALVIERLVYLRRSRILPP-----DLLNQVVRVYQSGRITDDVADKLE 65

Query: 72  RSTIFGPTLQASVESRALASGEAMERYIDESIVRTMPELDRSLWLLGAAITLGPLIGLLG 131
           +++  G  L A + +   A  E M+  I+E+       L+R L  LG   +L PL+GL G
Sbjct: 66  QNSPLGHVLAAGLRN-VDAPREVMKEAIEEAGQAAAHRLERFLTTLGTIASLAPLMGLFG 124

Query: 132 TIIGITESFNVLGTAGSSSGAVTNGIGHSLLATGCGLLVAIAGVAANSYF 181
           T++G+ E F     AG++   + +GI  +L  TG GL +A+  +    +F
Sbjct: 125 TVVGMIEIFASQNAAGTNPAQLAHGISIALYNTGFGLAIAMPALVFYRHF 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
   0.322    0.136    0.372 

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: 520,470
Number of extensions: 16271
Number of successful extensions: 97
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 97
Number of HSP's successfully gapped: 4
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 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 129 (54.3 bits)