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= 0082.0062.p
         (306 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310743|ref|YP_003774835.1| ABC transporter permease [Herba...   518   e-148
gi|300313551|ref|YP_003777643.1| ABC transporter permease [Herba...   145   6e-36

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

 Score =  518 bits (1334), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 278/306 (90%), Positives = 288/306 (94%)

Query: 1   MSDFDFTTLLLALFAGAIRVGTPFLFVSLGECLTEKGGRVNLGLEGILVCGAMTGYAVSF 60
           M D DFTTLLLALFAGAIRVGTPFLFVSLGECLTEKGGRVNLGLEGILVCGAMTGYA SF
Sbjct: 1   MHDIDFTTLLLALFAGAIRVGTPFLFVSLGECLTEKGGRVNLGLEGILVCGAMTGYAASF 60

Query: 61  FSGSAWLGVLAAGVSGMLLGTLHGLVCSLPRVNDIAFGIALMLLGTGLAFFLGKPFIQPQ 120
           +SGSAWLGVLAAG +G+LLG LHG+VCSLPRVNDIAFGIALMLLGTGLAFFLGKPFIQPQ
Sbjct: 61  YSGSAWLGVLAAGCTGLLLGVLHGVVCSLPRVNDIAFGIALMLLGTGLAFFLGKPFIQPQ 120

Query: 121 AAMLPSIDLGGWSSNPSIHHALQINALFVIGVLLAAALQWGLSSTSWGLALRLVGDHAET 180
           A MLPSIDLG WSSN  +HHALQINALF IGV+LA  LQWGLS+T WGLALRLVGDHAET
Sbjct: 121 APMLPSIDLGAWSSNDRLHHALQINALFFIGVVLALVLQWGLSATRWGLALRLVGDHAET 180

Query: 181 ARALGYRINLTRVVATACGGFLAAVGGAYLSLYYPGSWNEGLSSGQGLMAVALVIFARWQ 240
           ARALGYR+  TR+ ATA GGFLAAVGGAYLSLYYPGSWNEGLSSGQGLMAVALVIFARWQ
Sbjct: 181 ARALGYRLTGTRIAATAAGGFLAAVGGAYLSLYYPGSWNEGLSSGQGLMAVALVIFARWQ 240

Query: 241 PLRCLLAALLFGAAGALGPALQAVGVTSGYYLFNAAPYALTLLIMILTCRPDRTLSSAPG 300
           P RCLLAALLFGAAGALGPALQAVGVTSGYYLFNAAPYALTLLIMI+TCRPDRTLSSAPG
Sbjct: 241 PWRCLLAALLFGAAGALGPALQAVGVTSGYYLFNAAPYALTLLIMIMTCRPDRTLSSAPG 300

Query: 301 ELSLTR 306
           ELSLTR
Sbjct: 301 ELSLTR 306


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

 Score =  145 bits (365), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 110/300 (36%), Positives = 160/300 (53%), Gaps = 13/300 (4%)

Query: 10  LLALFAGAIRVGTPFLFVSLGECLTEKGGRVNLGLEGILVCGAMTGYAVSFFSGSAWLGV 69
           L  L A +I  GTP L  ++G  + E+ G +NLG EG+++  A+ G+AV + + S  LG 
Sbjct: 4   LAPLIAASINAGTPLLLAAIGLLINERSGVLNLGAEGMMLVAAIAGFAVGYTTKSPLLGF 63

Query: 70  LAAGVSGMLLGTLHGLVCSLPRVNDIAFGIALMLLGTGLAFFLGKPFI----QPQAAMLP 125
           +A  V GML+ TL   +      N +A G+AL + G GL+ F+G+ F+      Q+  +P
Sbjct: 64  MAGAVCGMLMATLFAWLALRLATNQVATGLALSIFGAGLSAFVGQRFVGLALPAQSTSVP 123

Query: 126 SI-DLGGWSSNPSIHHAL-QINALFVIGVLLAAALQWGLSSTSWGLALRLVGDHAETARA 183
            + DL      P +  AL   + +  +   L  A  W L  T  GL LR VG+  E+A A
Sbjct: 124 LLGDL------PFLGQALFHQHWMSYVAFALCLASIWFLYRTRAGLVLRAVGESPESAHA 177

Query: 184 LGYRINLTRVVATACGGFLAAVGGAYLSLYYPGSWNEGLSSGQGLMAVALVIFARWQPLR 243
           LGY +   R +A   GG    + GAY+SL Y   W EGL +G+G +A+AL  FA W+P R
Sbjct: 178 LGYSVRGIRYLALLFGGACCGLAGAYMSLVYTPMWVEGLVAGRGWIALALTAFATWRPAR 237

Query: 244 CLLAALLFGAAGALGPALQAVGVTSGYYLFNAAPYALTLLIMILTCR-PDRTLSSAPGEL 302
            LL +LLFG        LQ +GVT    + + APY  T++++ L  R PD    + P  L
Sbjct: 238 VLLGSLLFGGVTIAQFYLQGMGVTVPSQILSMAPYLATIVVLALISRNPDWIRLNMPASL 297


  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    0.436 

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: 929,526
Number of extensions: 39635
Number of successful extensions: 230
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 232
Number of HSP's successfully gapped: 2
Length of query: 306
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 221
Effective length of database: 1,217,395
Effective search space: 269044295
Effective search space used: 269044295
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 (21.6 bits)
S2: 130 (54.7 bits)