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= 0004.0134.p
         (376 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312407|ref|YP_003776499.1| permease [Herbaspirillum serope...   696   0.0  

>gi|300312407|ref|YP_003776499.1| permease [Herbaspirillum
           seropedicae SmR1]
          Length = 376

 Score =  696 bits (1795), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 351/376 (93%), Positives = 363/376 (96%)

Query: 1   MRVIQRYFTAEITRSVLFALAAFLALFAFFEMMGQLEQVGRNGYKLQQAVFYVLMGLPGN 60
           MRVIQRYFT+EITRSVLFALAAFLALFAFFEMMGQLEQVGRNGYKLQQAVFYVLMGLPGN
Sbjct: 1   MRVIQRYFTSEITRSVLFALAAFLALFAFFEMMGQLEQVGRNGYKLQQAVFYVLMGLPGN 60

Query: 61  VYELMPTAVLIGTIYTLSQLAARSEFTIMRVSSMSTGMAAKVLLRIGVGFAVLTIVFGEL 120
           VYELMPTAVLIGTIYTLSQLAARSEFTIMRVSSMSTG AA+VL RIGVGFAVLTIVFGEL
Sbjct: 61  VYELMPTAVLIGTIYTLSQLAARSEFTIMRVSSMSTGQAARVLARIGVGFAVLTIVFGEL 120

Query: 121 IAPKASEWAEKLKLQAQGASMSSQFRSGMWAKDVIKDNGLEGNVTGSRFINIQTVQPDGR 180
           IAPKA+EWAEKLKLQAQGAS+SSQFRSGMWAKDVI+D+GLEGNV GSRFINI+TVQPDGR
Sbjct: 121 IAPKATEWAEKLKLQAQGASLSSQFRSGMWAKDVIRDHGLEGNVVGSRFINIRTVQPDGR 180

Query: 181 IEGVKLYELDTDFHMARMVVAKDGIYEGNHQWVLNDVVQSDFVGGKDRKITEPVKTVKLP 240
           IEGVKLYELD+DFHMARMV AK G+Y+GNHQW L+DVVQSDF GG DRKITEPVKTVK  
Sbjct: 181 IEGVKLYELDSDFHMARMVTAKAGMYDGNHQWTLSDVVQSDFTGGSDRKITEPVKTVKSA 240

Query: 241 QLKLVSEVTPEILSVLFADPDRMSAYDLLAYTKHLEANNQRTDRYEIAFWKKIVYPLSIF 300
           QL LVSEVTPEILSVLFADPDRMSAYDLLAYTKHLEANNQRTDRYEIAFWKKIVYPLSIF
Sbjct: 241 QLTLVSEVTPEILSVLFADPDRMSAYDLLAYTKHLEANNQRTDRYEIAFWKKIVYPLSIF 300

Query: 301 VMLALALPFAYLHFRAGGVSLKIFTGIMIGVCFQLINSLFSHLGLLNTWPAFMTAALPSL 360
           VMLALALPFAYLHFRAGGVSLKIFTGIMIGVCFQLINSLFSHLGLLNTWPAF+TAALPSL
Sbjct: 301 VMLALALPFAYLHFRAGGVSLKIFTGIMIGVCFQLINSLFSHLGLLNTWPAFVTAALPSL 360

Query: 361 LFMVLAIGALWWVERT 376
           LFM LA GALWWVERT
Sbjct: 361 LFMALAAGALWWVERT 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
   0.326    0.139    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: 1,068,647
Number of extensions: 42127
Number of successful extensions: 175
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 175
Number of HSP's successfully gapped: 1
Length of query: 376
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 289
Effective length of database: 1,207,925
Effective search space: 349090325
Effective search space used: 349090325
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)