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= 0208.0003.p
         (565 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309772|ref|YP_003773864.1| DNA-binding ferritin-like prote...   259   3e-70
gi|300309773|ref|YP_003773865.1| major facilitator superfamily p...   132   6e-32
gi|300313798|ref|YP_003777890.1| low temperature-induced protein...    72   9e-14

>gi|300309772|ref|YP_003773864.1| DNA-binding ferritin-like protein
           [Herbaspirillum seropedicae SmR1]
          Length = 164

 Score =  259 bits (663), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 126/136 (92%), Positives = 130/136 (95%), Gaps = 2/136 (1%)

Query: 233 MAKKNVAA--INIGINDKDRKKIADGLSKLLADTYTLYLKTHNFHWNVTGPMFNTLHLMF 290
           MAKKNVAA  INIGINDKDRKKIADGLSKLLADTYTLYLKTHNFHWNVTGPMFNTLHLMF
Sbjct: 1   MAKKNVAAPSINIGINDKDRKKIADGLSKLLADTYTLYLKTHNFHWNVTGPMFNTLHLMF 60

Query: 291 EGQYNELALAVDLIAERIRALGYPAPGSYKEFAKLSSIPEAEGVPSAQDMIAQLVAGQEA 350
           EGQYNELALAVDLIAERIRALGYPAPGSYKEFAKLSSIPEA+GVP+AQ+MIAQLVAGQEA
Sbjct: 61  EGQYNELALAVDLIAERIRALGYPAPGSYKEFAKLSSIPEADGVPNAQEMIAQLVAGQEA 120

Query: 351 VTRTARSLFPAVGAGG 366
           VTRTARS+FP V A  
Sbjct: 121 VTRTARSIFPTVDAAA 136


>gi|300309773|ref|YP_003773865.1| major facilitator superfamily
           permease [Herbaspirillum seropedicae SmR1]
          Length = 413

 Score =  132 bits (333), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 68/114 (59%), Positives = 85/114 (74%), Gaps = 8/114 (7%)

Query: 24  STPISASP----SQTAVMVQILSTVLFTFLAYMTIGIPLAVLPGYVHLDLGYSSFIAGLS 79
           +TP+ A+P    +   V  QI++T  FTFL Y+ IGIP+AVLPGY+HLDLGYSS +AGL 
Sbjct: 12  ATPVPAAPPRPLTPAKVTRQIIATAFFTFLVYLAIGIPMAVLPGYIHLDLGYSSVMAGLG 71

Query: 80  ISVQYLSTLITRAQAGRMVDTVGPKKTVMRGMLACVASGAFLVLAAWSAELXQP 133
           ISVQY +T ++RA AGRM+DTVG K+TVMRGML C ASGA L+ +A    L QP
Sbjct: 72  ISVQYFATFVSRANAGRMIDTVGAKQTVMRGMLLCSASGALLLCSA----LAQP 121



 Score = 87.4 bits (215), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 44/77 (57%), Positives = 61/77 (79%), Gaps = 1/77 (1%)

Query: 366 GMVGGTSVGXLVLAAWSAE-LPWLSLSMILVSRFCLGIGESLAGTGSIIWGIGRIGAAHT 424
           GM+  ++ G L+L +  A+ LP+LSL ++  SR  LG+GESL GTG+I+WG+GR+G+ +T
Sbjct: 102 GMLLCSASGALLLCSALAQPLPFLSLVLLFASRALLGLGESLVGTGAIMWGVGRVGSENT 161

Query: 425 ARMISWNGIATYGALAI 441
           A+MISWNGIATY ALAI
Sbjct: 162 AKMISWNGIATYAALAI 178


>gi|300313798|ref|YP_003777890.1| low temperature-induced protein
           [Herbaspirillum seropedicae SmR1]
          Length = 162

 Score = 72.4 bits (176), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 34/101 (33%), Positives = 59/101 (58%), Gaps = 1/101 (0%)

Query: 245 INDKDRKKIADGLSKLLADTYTLYLKTHNFHWNVTGPMFNTLHLMFEGQYNELALAVDLI 304
           ++++ R+++   L+ LLAD + LYLKT NFHW+++GP F   HL+ + Q  ++    D +
Sbjct: 10  LSEQARQEVGGALTMLLADVFALYLKTKNFHWHMSGPHFRDYHLLLDDQSQQIIAITDAV 69

Query: 305 AERIRALGYPAPGSYKEFAKLSSIPEAEG-VPSAQDMIAQL 344
           AER+R +G     S     KL  + + +    +  DM+A+L
Sbjct: 70  AERVRKIGGTTLRSTGHIGKLQRLSDNDADFVTPADMLAEL 110


  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    0.135    0.409 

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: 1,698,400
Number of extensions: 67948
Number of successful extensions: 273
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 272
Number of HSP's successfully gapped: 5
Length of query: 565
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 475
Effective length of database: 1,193,720
Effective search space: 567017000
Effective search space used: 567017000
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: 133 (55.8 bits)