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= 0027.0002.p
         (377 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...   556   e-159

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

 Score =  556 bits (1432), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 283/378 (74%), Positives = 321/378 (84%), Gaps = 5/378 (1%)

Query: 1   MRVLQRYITTEIVRSVAFALAAFLALFAFFEMMGQLEAVGRNGYQLQNAVLYVIMGLPGN 60
           MRV+QRY T+EI RSV FALAAFLALFAFFEMMGQLE VGRNGY+LQ AV YV+MGLPGN
Sbjct: 1   MRVIQRYFTSEITRSVLFALAAFLALFAFFEMMGQLEQVGRNGYKLQQAVFYVLMGLPGN 60

Query: 61  VYELMPIAVLIGTIYALAQFAASSEFTIMRVSSMSTRMTAKALAKIGLGFAIVTILFGEL 120
           VYELMP AVLIGTIY L+Q AA SEFTIMRVSSMST   A+ LA+IG+GFA++TI+FGEL
Sbjct: 61  VYELMPTAVLIGTIYTLSQLAARSEFTIMRVSSMSTGQAARVLARIGVGFAVLTIVFGEL 120

Query: 121 VAPKATELGEKIKLQAQGSSLSQQFRSGLWAKDVIKSNGLEGDVIGTRFLNIQRIQTDGG 180
           +APKATE  EK+KLQAQG+SLS QFRSG+WAKDVI+ +GLEG+V+G+RF+NI+ +Q DG 
Sbjct: 121 IAPKATEWAEKLKLQAQGASLSSQFRSGMWAKDVIRDHGLEGNVVGSRFINIRTVQPDGR 180

Query: 181 LEGVKIYELDKDFHLSDLIVAAHGDYQGNHTWQLSDVQKTTFI--VDKKVSAITAPISTE 238
           +EGVK+YELD DFH++ ++ A  G Y GNH W LSDV ++ F    D+K   IT P+ T 
Sbjct: 181 IEGVKLYELDSDFHMARMVTAKAGMYDGNHQWTLSDVVQSDFTGGSDRK---ITEPVKTV 237

Query: 239 KIKTVNFVSEVTPEILSVLFADPDRMSAYDLRAYTKHLEANNQRTERYEIAFWKKIVYPL 298
           K   +  VSEVTPEILSVLFADPDRMSAYDL AYTKHLEANNQRT+RYEIAFWKKIVYPL
Sbjct: 238 KSAQLTLVSEVTPEILSVLFADPDRMSAYDLLAYTKHLEANNQRTDRYEIAFWKKIVYPL 297

Query: 299 SIFVMMGLALPFAYLHFRTGGVSLKIFTGIMIGVSFQLINNLFSHLGLLNTWPALVTAAL 358
           SIFVM+ LALPFAYLHFR GGVSLKIFTGIMIGV FQLIN+LFSHLGLLNTWPA VTAAL
Sbjct: 298 SIFVMLALALPFAYLHFRAGGVSLKIFTGIMIGVCFQLINSLFSHLGLLNTWPAFVTAAL 357

Query: 359 PSTLFMLMALVALRWVER 376
           PS LFM +A  AL WVER
Sbjct: 358 PSLLFMALAAGALWWVER 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    0.138    0.395 

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: 1,031,213
Number of extensions: 40128
Number of successful extensions: 147
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 146
Number of HSP's successfully gapped: 1
Length of query: 377
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 290
Effective length of database: 1,207,925
Effective search space: 350298250
Effective search space used: 350298250
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)