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= 0001.2371.p
         (323 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...    94   2e-20
gi|300310743|ref|YP_003774835.1| ABC transporter permease [Herba...    76   3e-15

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

 Score = 93.6 bits (231), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 100/302 (33%), Positives = 147/302 (48%), Gaps = 37/302 (12%)

Query: 15  LLPAVLRASTPILLTALGGLLSDLAGCINVGLEGLMLVAAF--FAVMGSVLAAYCLPGLP 72
           L+ A + A TP+LL A+G L+++ +G +N+G EG+MLVAA   FAV  +  +        
Sbjct: 7   LIAASINAGTPLLLAAIGLLINERSGVLNLGAEGMMLVAAIAGFAVGYTTKS-------- 58

Query: 73  PVWHAWLGALAGVLAAMLLALLLAVFHLEWGADLIVAGIALNVLAAGLTVFLLSTLVGDK 132
           P+    LG +AG +  ML+A L A   L    + +  G+AL++  AGL+ F+    VG  
Sbjct: 59  PL----LGFMAGAVCGMLMATLFAWLALRLATNQVATGLALSIFGAGLSAFVGQRFVGLA 114

Query: 133 GSTAGLDTPVLPALHLPGLQSWPQLDLLLNGEHGRGHHLLLWTALLAIPVLRLLLHHTRT 192
                   P+L              DL   G+     H + + A          L+ TR 
Sbjct: 115 LPAQSTSVPLLG-------------DLPFLGQALFHQHWMSYVAFALCLASIWFLYRTRA 161

Query: 193 GVWLCASGEHPQAAAEAGIPVKRMRYLALLLSGLLAGLGGVYLSMGYLSLFQADMTAGRG 252
           G+ L A GE P++A   G  V+ +RYLALL  G   GL G Y+S+ Y  ++   + AGRG
Sbjct: 162 GLVLRAVGESPESAHALGYSVRGIRYLALLFGGACCGLAGAYMSLVYTPMWVEGLVAGRG 221

Query: 253 FLALA----AVFVGARSLTGTVVASLLFGASAVLSTRLGAAGMA--PQLLYMLPPAVTLL 306
           ++ALA    A +  AR L G    SLLFG   +    L   G+    Q+L M P   T++
Sbjct: 222 WIALALTAFATWRPARVLLG----SLLFGGVTIAQFYLQGMGVTVPSQILSMAPYLATIV 277

Query: 307 AL 308
            L
Sbjct: 278 VL 279


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

 Score = 76.3 bits (186), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 77/252 (30%), Positives = 112/252 (44%), Gaps = 33/252 (13%)

Query: 13  VALLPAVLRASTPILLTALGGLLSDLAGCINVGLEGLMLVAAFFAVMGSVLAAYCLPGLP 72
           +AL    +R  TP L  +LG  L++  G +N+GLEG+++  A      S  +        
Sbjct: 11  LALFAGAIRVGTPFLFVSLGECLTEKGGRVNLGLEGILVCGAMTGYAASFYSG------- 63

Query: 73  PVWHAWLGALAGVLAAMLLALLLAVFHLEWGADLIVAGIALNVLAAGLTVFLLSTLVGDK 132
               AWLG LA     +LL +L  V       + I  GIAL +L  GL  FL    +  +
Sbjct: 64  ---SAWLGVLAAGCTGLLLGVLHGVVCSLPRVNDIAFGIALMLLGTGLAFFLGKPFIQPQ 120

Query: 133 GSTAGLDTPVLPALHLPGLQSWPQLDLLLNGEHGRGHHLLLWTALLAIPVLRLL-----L 187
                   P+LP++ L    +W   D        R HH L   AL  I V+  L     L
Sbjct: 121 -------APMLPSIDL---GAWSSND--------RLHHALQINALFFIGVVLALVLQWGL 162

Query: 188 HHTRTGVWLCASGEHPQAAAEAGIPVKRMRYLALLLSGLLAGLGGVYLSMGYLSLFQADM 247
             TR G+ L   G+H + A   G  +   R  A    G LA +GG YLS+ Y   +   +
Sbjct: 163 SATRWGLALRLVGDHAETARALGYRLTGTRIAATAAGGFLAAVGGAYLSLYYPGSWNEGL 222

Query: 248 TAGRGFLALAAV 259
           ++G+G +A+A V
Sbjct: 223 SSGQGLMAVALV 234


  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    0.428 

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: 787,231
Number of extensions: 27388
Number of successful extensions: 214
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 212
Number of HSP's successfully gapped: 5
Length of query: 323
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 238
Effective length of database: 1,217,395
Effective search space: 289740010
Effective search space used: 289740010
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)