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= 0027.0001.p
         (384 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...   534   e-153

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

 Score =  534 bits (1375), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 290/385 (75%), Positives = 334/385 (86%), Gaps = 10/385 (2%)

Query: 1   MIFERALRRELMSTAGAVFTTLFTITLTVMLIKILGQAAGGQVSSQDVLALIGFQALNYM 60
           MIF+RALRREL STAG VFTTLFTITLTVMLIKILGQAAGGQV+SQDV+ALIGFQ+LNYM
Sbjct: 1   MIFQRALRRELTSTAGGVFTTLFTITLTVMLIKILGQAAGGQVASQDVIALIGFQSLNYM 60

Query: 61  PVILILTGFISVLLVVTRSYQDSEMVVWFASGLSLTRWIRPVLRFGWPIILLTAVLSFVA 120
           P+ILILTGFISVLLV+TRSYQDSE+VVWFA G+SLTRWI PVLRFGWPI+ L A LSFVA
Sbjct: 61  PIILILTGFISVLLVMTRSYQDSEIVVWFACGMSLTRWIAPVLRFGWPIVALVAALSFVA 120

Query: 121 TPWANQQSAQFRERFEKREDIARVSPGKFQESATANRIFFVEGISGDANKVKNVFVNTF- 179
           TPWANQQS+++R RFE+REDIARVSPGKFQESA ANRIFFVEGISGDA+KV+N+FVNT  
Sbjct: 121 TPWANQQSSEYRSRFEQREDIARVSPGKFQESAAANRIFFVEGISGDASKVRNIFVNTIG 180

Query: 180 RDGKNSIVVAKEGEMEVDKDGEKFVVMNKGRRYDGMPTQPDFQMVEFERYGLLVGGQSQA 239
            DGKNS+VVAKEGE  +D DGEKFVVMN+GRRYDG P  PDFQ+V+FERYGLL+G QSQ 
Sbjct: 181 ADGKNSVVVAKEGETVIDPDGEKFVVMNQGRRYDGSPGLPDFQIVDFERYGLLIGNQSQN 240

Query: 240 AARALQTWDLLAQXSARALQTWDLLAQDTQFTRGELLWRMALPLMASTLMLLAIPLSFVN 299
           AA          + SARALQ  +L+A++  + RGELLWR+ALP MA TLMLLAIPLSFVN
Sbjct: 241 AA---------GERSARALQMNELVAKNDGYARGELLWRIALPFMALTLMLLAIPLSFVN 291

Query: 300 PRVGRSMGLLVALLLFVVYSNTVSVMQSSVIQNRTSFLLAWWPVHLVVALLVIGLFFLRL 359
           PR GRS+GLLVALLLFVVYSNTVSV Q+SV Q R +F++AWWPVH+VV LL++G+F LRL
Sbjct: 292 PRAGRSLGLLVALLLFVVYSNTVSVFQASVAQGRATFMMAWWPVHVVVVLLIVGMFALRL 351

Query: 360 KVNSHYHPAVMWSRVRRALFLKRQA 384
            +N  YHP+ +WSRVRRA+  +R+A
Sbjct: 352 NINHPYHPSRLWSRVRRAMTFQREA 376


  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
   0.327    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: 1,062,234
Number of extensions: 40862
Number of successful extensions: 181
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 179
Number of HSP's successfully gapped: 1
Length of query: 384
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 297
Effective length of database: 1,207,925
Effective search space: 358753725
Effective search space used: 358753725
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 131 (55.1 bits)