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= 0001.0874.p
         (426 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310412|ref|YP_003774504.1| spermidine/putrescine ABC trans...   786   0.0  

>gi|300310412|ref|YP_003774504.1| spermidine/putrescine ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 427

 Score =  786 bits (2029), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 410/427 (96%), Positives = 417/427 (97%), Gaps = 1/427 (0%)

Query: 1   MTTIATRSAA-MPLAEPDPQQLKRELRAAQTRKRLGALALIAPLAIFLLLTFVAPIVALL 59
           MTTIATRSAA MPLAEPDPQQLKR+LRAAQTRKRLGALALIAPLAIFLLLTFVAPIVALL
Sbjct: 1   MTTIATRSAAAMPLAEPDPQQLKRDLRAAQTRKRLGALALIAPLAIFLLLTFVAPIVALL 60

Query: 60  QRAIENPEVATTLPQTVAVLSKWDRKSALPDQAYSALAEDLARAKEDTTAGNLARRLNIE 119
           QRAIENPEVA TLPQTVAVL+KWDRKSALPDQAYSALA DL RAKEDTTAGNLARRLNIE
Sbjct: 61  QRAIENPEVAATLPQTVAVLAKWDRKSALPDQAYSALAADLTRAKEDTTAGNLARRLNIE 120

Query: 120 IPGARSLVMGTTRAMPLRDEQGKPLSPAAAREAIIALNAQWGQPDVWRVIAQNGSVYSPY 179
           + G+RSLVMGTTRAMPLRD +GKPLSPAAAR+AIIALNAQWGQPDVWRVIAQNGSVYSPY
Sbjct: 121 LAGSRSLVMGTTRAMPLRDAEGKPLSPAAARDAIIALNAQWGQPDVWRVIAQNGSVYSPY 180

Query: 180 YLLASLDLRQNVFGDIEAASPESAIYRTIFGRTLWMSAVVTCFALLLAYPLAYWLSTMPE 239
           YLLASLDLRQNVFGDIEAA PESAIYRTIFGRTLWMSAVVTC  LLLAYPLAYWLSTMPE
Sbjct: 181 YLLASLDLRQNVFGDIEAAPPESAIYRTIFGRTLWMSAVVTCITLLLAYPLAYWLSTMPE 240

Query: 240 RRANLLMILVLIPFWTSILVRVAAWIVLLQSEGLVNKALMLAGLTQSPLELVFNRVGVYI 299
           RRANLLMILVLIPFWTSILVRVAAWIVLLQSEGLVNKALMLAGLTQSPLELVFNRVGVYI
Sbjct: 241 RRANLLMILVLIPFWTSILVRVAAWIVLLQSEGLVNKALMLAGLTQSPLELVFNRVGVYI 300

Query: 300 SMTHILLPFMILPLYSVMKSVPPTYLKAAVSLGSHPFAAFWRVYVPQTYPGVGAGVLLVF 359
           SMTHILLPFMILPLYSVMKSVP TYLKAAVSLGSHPFAAFWRVYVPQTYPG+GAGVLLVF
Sbjct: 301 SMTHILLPFMILPLYSVMKSVPATYLKAAVSLGSHPFAAFWRVYVPQTYPGIGAGVLLVF 360

Query: 360 IMAGGYYITPALLGGPNEQMVSYFIAYFINTTINWGMACALGALLLAATLVLYGVYRRFA 419
           IMAGGYYITPALLGGPNEQMVSYFIAYFINTTINWGMACALGALLLAATLVLYGVYRRFA
Sbjct: 361 IMAGGYYITPALLGGPNEQMVSYFIAYFINTTINWGMACALGALLLAATLVLYGVYRRFA 420

Query: 420 KVDVGIS 426
           KVDVGIS
Sbjct: 421 KVDVGIS 427


  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
   0.324    0.137    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: 1,144,037
Number of extensions: 42310
Number of successful extensions: 252
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 256
Number of HSP's successfully gapped: 4
Length of query: 426
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 338
Effective length of database: 1,203,190
Effective search space: 406678220
Effective search space used: 406678220
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 132 (55.5 bits)