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= 0027.0028.p
         (310 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313551|ref|YP_003777643.1| ABC transporter permease [Herba...   287   8e-79
gi|300310743|ref|YP_003774835.1| ABC transporter permease [Herba...   151   7e-38

>gi|300313551|ref|YP_003777643.1| ABC transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 306

 Score =  287 bits (734), Expect = 8e-79,   Method: Compositional matrix adjust.
 Identities = 161/283 (56%), Positives = 195/283 (68%), Gaps = 7/283 (2%)

Query: 30  SERSGVLNLGVEGMMLIGAVTGYAITVVSGHQWLGLLAAGMAGMLMAALFGLLVLVMLAN 89
           +ERSGVLNLG EGMML+ A+ G+A+   +    LG +A  + GMLMA LF  L L +  N
Sbjct: 28  NERSGVLNLGAEGMMLVAAIAGFAVGYTTKSPLLGFMAGAVCGMLMATLFAWLALRLATN 87

Query: 90  QVAVGLALSMLGIGLSAYVGQPFT--AATIQQTISPWSIPLLVDIPVLGPALFHQTPLVY 147
           QVA GLALS+ G GLSA+VGQ F   A   Q T    S+PLL D+P LG ALFHQ  + Y
Sbjct: 88  QVATGLALSIFGAGLSAFVGQRFVGLALPAQST----SVPLLGDLPFLGQALFHQHWMSY 143

Query: 148 LALLTVPAIWWFLTRTRAGLVLRAVGESPDSAHALGYSVVRVRFGATLFGGIMAGLAGGY 207
           +A     A  WFL RTRAGLVLRAVGESP+SAHALGYSV  +R+ A LFGG   GLAG Y
Sbjct: 144 VAFALCLASIWFLYRTRAGLVLRAVGESPESAHALGYSVRGIRYLALLFGGACCGLAGAY 203

Query: 208 YSVVYLHLWQEQMTVGLGWIALGLVVFATWRPGRLLLGALLFGALMALQFQLQNSPVLSI 267
            S+VY  +W E +  G GWIAL L  FATWRP R+LLG+LLFG +   QF LQ   V ++
Sbjct: 204 MSLVYTPMWVEGLVAGRGWIALALTAFATWRPARVLLGSLLFGGVTIAQFYLQGMGV-TV 262

Query: 268 PTPLLASLPYLATVVVLVVISRDPQLMRKNAPASLGKPFFPGS 310
           P+ +L+  PYLAT+VVL +ISR+P  +R N PASLGKPF PG+
Sbjct: 263 PSQILSMAPYLATIVVLALISRNPDWIRLNMPASLGKPFRPGA 305


>gi|300310743|ref|YP_003774835.1| ABC transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 306

 Score =  151 bits (381), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 113/307 (36%), Positives = 170/307 (55%), Gaps = 18/307 (5%)

Query: 3   STQAIVLLSNTLVIAVPLLLAGLGELVSERSGVLNLGVEGMMLIGAVTGYAITVVSGHQW 62
           +T  + L +  + +  P L   LGE ++E+ G +NLG+EG+++ GA+TGYA +  SG  W
Sbjct: 7   TTLLLALFAGAIRVGTPFLFVSLGECLTEKGGRVNLGLEGILVCGAMTGYAASFYSGSAW 66

Query: 63  LGLLAAGMAGMLMAALFGLLVLVMLANQVAVGLALSMLGIGLSAYVGQPFTAATIQQTIS 122
           LG+LAAG  G+L+  L G++  +   N +A G+AL +LG GL+ ++G+PF        I 
Sbjct: 67  LGVLAAGCTGLLLGVLHGVVCSLPRVNDIAFGIALMLLGTGLAFFLGKPF--------IQ 118

Query: 123 PWSIPLLVDIPV----LGPALFHQ---TPLVYLALLTVPAIWWFLTRTRAGLVLRAVGES 175
           P   P+L  I +        L H      L ++ ++    + W L+ TR GL LR VG+ 
Sbjct: 119 P-QAPMLPSIDLGAWSSNDRLHHALQINALFFIGVVLALVLQWGLSATRWGLALRLVGDH 177

Query: 176 PDSAHALGYSVVRVRFGATLFGGIMAGLAGGYYSVVYLHLWQEQMTVGLGWIALGLVVFA 235
            ++A ALGY +   R  AT  GG +A + G Y S+ Y   W E ++ G G +A+ LV+FA
Sbjct: 178 AETARALGYRLTGTRIAATAAGGFLAAVGGAYLSLYYPGSWNEGLSSGQGLMAVALVIFA 237

Query: 236 TWRPGRLLLGALLFGALMALQFQLQNSPVLSIPTPLLASLPYLATVVVLVVISRDPQLMR 295
            W+P R LL ALLFGA  AL   LQ   V S    L  + PY  T++++++  R P    
Sbjct: 238 RWQPWRCLLAALLFGAAGALGPALQAVGVTS-GYYLFNAAPYALTLLIMIMTCR-PDRTL 295

Query: 296 KNAPASL 302
            +AP  L
Sbjct: 296 SSAPGEL 302


  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    0.141    0.424 

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: 934,665
Number of extensions: 38815
Number of successful extensions: 286
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 289
Number of HSP's successfully gapped: 5
Length of query: 310
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 225
Effective length of database: 1,217,395
Effective search space: 273913875
Effective search space used: 273913875
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: 130 (54.7 bits)