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= 0250.0005.p
         (549 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313992|ref|YP_003778084.1| extracellular solute-binding, f...   323   3e-89
gi|300309614|ref|YP_003773706.1| sugar ABC transporter periplasm...    77   5e-15

>gi|300313992|ref|YP_003778084.1| extracellular solute-binding,
           family 1 protein [Herbaspirillum seropedicae SmR1]
          Length = 473

 Score =  323 bits (827), Expect = 3e-89,   Method: Compositional matrix adjust.
 Identities = 161/319 (50%), Positives = 223/319 (69%), Gaps = 4/319 (1%)

Query: 38  ITALVWAPDWPDEMHRIANEFHRAHPNISVDVQFMIGNSVEENLKPKIATRNLPDLVSVN 97
           + ALVWAPDW +EM R+ + F   HP + +++QFMIGNSVEENLKP+  T +LPD+VSVN
Sbjct: 78  LNALVWAPDWAEEMQRVCDGFMHEHPGVRINLQFMIGNSVEENLKPRATTDSLPDIVSVN 137

Query: 98  PNAYSAELAEQGILTDLGETAAWNNMLESLKPDWTSRHGKRFGISGGVAATLIYYNKAMF 157
            + Y+A LA+QG+L DLG+T +W+ +L+ L+ +WT+  G RFG+  GVA TLIYY+  +F
Sbjct: 138 ASPYTASLADQGLLADLGQTRSWHGLLDILQREWTAPGGCRFGLPSGVATTLIYYHPDLF 197

Query: 158 RRAGIAAPPTSFEEFLAACAALRKAGFTPMVWTGAFPNTLANGPFSFGFANGVAAHHPRD 217
            RAGI A P  FE+FLAA AALR+AG TP+  +G FPN L NGPFS+GFAN VA+  P D
Sbjct: 198 ERAGIQALPGDFEQFLAAGAALRRAGITPLALSGGFPNMLGNGPFSYGFANLVASSTP-D 256

Query: 218 WKQRIADGSLDLANGDAVDIFARIKLIADKGYLQRGFMNTSYDEGIRLFADGKAAMAFQG 277
           W+Q IA+G+L L N     +F+R++ +  +  +Q   +   YD  +R FA+G+AAM FQG
Sbjct: 257 WRQHIANGTLALDNAQGWAVFSRLRTLMTRHLVQADCLRAGYDATLRQFAEGRAAMTFQG 316

Query: 278 TWSSGALMHGKDFDTGVFVPPWNARGKTVVPVVGSETGFAV---CDTPRKKAALQFLEFI 334
           +W++G LM G+    GVFVPPWN + +    V+GSETGFA+        ++AA +FL+++
Sbjct: 317 SWAAGVLMQGRGQPVGVFVPPWNDKDQPRQAVIGSETGFAIAQRISARHRQAAARFLDYL 376

Query: 335 YGKGFAIQQNKRQNIPPLK 353
           +G G  + Q KRQNI P K
Sbjct: 377 FGAGLPVWQGKRQNILPFK 395


>gi|300309614|ref|YP_003773706.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 415

 Score = 76.6 bits (187), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 61/228 (26%), Positives = 104/228 (45%), Gaps = 14/228 (6%)

Query: 56  NEFHRAHPNISVDVQFMIGNSVEENLKPKIATRNLPDLVSVNPNAYSAELAEQGILTDLG 115
           +EF +A+P++ +   F+   + +  L P   +   PD+++ +     A  A +G+L D+ 
Sbjct: 49  DEFKKANPDVDIKPSFIEEEAYKVQL-PGWLSTQAPDIINWHNGERMAFYASRGLLEDVS 107

Query: 116 E---TAAWNNMLESLKPDWTSRHGKRFGISGGVAATLIYYNKAMFRRAGIAAPPTSFEEF 172
           E      W+    S K + +S HGK++ +     +  ++Y K +F++ GIA  P +++EF
Sbjct: 108 EDWKKNGWDATYASTK-EASSWHGKQYSVPTVYYSWGMFYRKDLFKKVGIAGEPKTWDEF 166

Query: 173 LAACAALRKAGFTPMVWTGAFPNTLANGPFSF--GFANGVAAHHPRDWKQRIADGSLDLA 230
           L AC  L+ AG  P+   G    TLA G F +     NG A H      Q++  G +   
Sbjct: 167 LDACKKLKAAGIAPIAVGGRDAWTLA-GWFDYLDLRINGNAFH------QQLMAGDIAYT 219

Query: 231 NGDAVDIFARIKLIADKGYLQRGFMNTSYDEGIRLFADGKAAMAFQGT 278
           +     +    K + D  Y     ++   D        GKAAM   GT
Sbjct: 220 DARVKKVHTAWKSLIDNKYFIDNALSYDLDGAQPFLFQGKAAMMLMGT 267


  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
   0.318    0.135    0.410 

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: 1,690,397
Number of extensions: 71060
Number of successful extensions: 225
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 223
Number of HSP's successfully gapped: 2
Length of query: 549
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 459
Effective length of database: 1,193,720
Effective search space: 547917480
Effective search space used: 547917480
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 (21.7 bits)
S2: 133 (55.8 bits)