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= 0004.0135.p
         (396 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312408|ref|YP_003776500.1| permease [Herbaspirillum serope...   649   0.0  

>gi|300312408|ref|YP_003776500.1| permease [Herbaspirillum
           seropedicae SmR1]
          Length = 376

 Score =  649 bits (1673), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 349/375 (93%), Positives = 362/375 (96%)

Query: 21  MIFQRALRRELTSTAGGVFTTLFTITLTVMLIKILGQAAGGQVASQDVLALIGFQSLNYM 80
           MIFQRALRRELTSTAGGVFTTLFTITLTVMLIKILGQAAGGQVASQDV+ALIGFQSLNYM
Sbjct: 1   MIFQRALRRELTSTAGGVFTTLFTITLTVMLIKILGQAAGGQVASQDVIALIGFQSLNYM 60

Query: 81  PIILILTGFISVLLVMTRSYQDSEIVVWFACGMSLTRWIAPVIRFGWPIVALVATLSFVV 140
           PIILILTGFISVLLVMTRSYQDSEIVVWFACGMSLTRWIAPV+RFGWPIVALVA LSFV 
Sbjct: 61  PIILILTGFISVLLVMTRSYQDSEIVVWFACGMSLTRWIAPVLRFGWPIVALVAALSFVA 120

Query: 141 TPWANEQSSEYRSRFEQREDIARVSPGKFQESAAANRIFFVEGISGDASKVRNIFVNTIN 200
           TPWAN+QSSEYRSRFEQREDIARVSPGKFQESAAANRIFFVEGISGDASKVRNIFVNTI 
Sbjct: 121 TPWANQQSSEYRSRFEQREDIARVSPGKFQESAAANRIFFVEGISGDASKVRNIFVNTIG 180

Query: 201 ADGKNSVVVAKEGETQIDPDGEKFVVMNKGRRYDGSPSLPDFQIVDFERYGLLIGNQSQS 260
           ADGKNSVVVAKEGET IDPDGEKFVVMN+GRRYDGSP LPDFQIVDFERYGLLIGNQSQ+
Sbjct: 181 ADGKNSVVVAKEGETVIDPDGEKFVVMNQGRRYDGSPGLPDFQIVDFERYGLLIGNQSQN 240

Query: 261 AAGERSARALQMKELLAKQDGYARGELLWRIALPLMALALMLLAIPLSFVNPRAGRSLGL 320
           AAGERSARALQM EL+AK DGYARGELLWRIALP MAL LMLLAIPLSFVNPRAGRSLGL
Sbjct: 241 AAGERSARALQMNELVAKNDGYARGELLWRIALPFMALTLMLLAIPLSFVNPRAGRSLGL 300

Query: 321 LVALLLFVVYSNTVSVFQASVAQQRMSFVMAWWPVHLIVVALIVGMFVLRLNINHPYHPS 380
           LVALLLFVVYSNTVSVFQASVAQ R +F+MAWWPVH++VV LIVGMF LRLNINHPYHPS
Sbjct: 301 LVALLLFVVYSNTVSVFQASVAQGRATFMMAWWPVHVVVVLLIVGMFALRLNINHPYHPS 360

Query: 381 RMWSRVRRALTFKRE 395
           R+WSRVRRA+TF+RE
Sbjct: 361 RLWSRVRRAMTFQRE 375


  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
   0.325    0.137    0.407 

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: 1,060,711
Number of extensions: 36956
Number of successful extensions: 161
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 161
Number of HSP's successfully gapped: 1
Length of query: 396
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 309
Effective length of database: 1,207,925
Effective search space: 373248825
Effective search space used: 373248825
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: 131 (55.1 bits)