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= 0001.1223.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...   549   e-158
gi|300313551|ref|YP_003777643.1| ABC transporter permease [Herba...   145   4e-36

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

 Score =  549 bits (1415), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 292/306 (95%), Positives = 301/306 (98%)

Query: 1   MHDIDLTTLLLALFAGAIRVGTPFLFVSLGECLTEKGGRVNLGLEGILVCGAMTGYAASF 60
           MHDID TTLLLALFAGAIRVGTPFLFVSLGECLTEKGGRVNLGLEGILVCGAMTGYAASF
Sbjct: 1   MHDIDFTTLLLALFAGAIRVGTPFLFVSLGECLTEKGGRVNLGLEGILVCGAMTGYAASF 60

Query: 61  YTGSAWLGVLAAGCSGLLLGVLHGVVCSLPRVNDIAFGIALMLLGTGLAFFLGKPFIQPQ 120
           Y+GSAWLGVLAAGC+GLLLGVLHGVVCSLPRVNDIAFGIALMLLGTGLAFFLGKPFIQPQ
Sbjct: 61  YSGSAWLGVLAAGCTGLLLGVLHGVVCSLPRVNDIAFGIALMLLGTGLAFFLGKPFIQPQ 120

Query: 121 AAMLPAIDLGAWSSNERLHHALQINALFFLGVALALLLQWGLAATRWGLALRLVGDHAET 180
           A MLP+IDLGAWSSN+RLHHALQINALFF+GV LAL+LQWGL+ATRWGLALRLVGDHAET
Sbjct: 121 APMLPSIDLGAWSSNDRLHHALQINALFFIGVVLALVLQWGLSATRWGLALRLVGDHAET 180

Query: 181 ARALGYHLTGIRIAATAAGGFLAAVGGAYLSLYYPGSWNEGLSSGQGLMAVALVIFARWQ 240
           ARALGY LTG RIAATAAGGFLAAVGGAYLSLYYPGSWNEGLSSGQGLMAVALVIFARWQ
Sbjct: 181 ARALGYRLTGTRIAATAAGGFLAAVGGAYLSLYYPGSWNEGLSSGQGLMAVALVIFARWQ 240

Query: 241 PWRCLLAALLFGAAGALGPALQAVGVTSGYYLFNAAPYALTLLIMILTCRPDRTLSAAPG 300
           PWRCLLAALLFGAAGALGPALQAVGVTSGYYLFNAAPYALTLLIMI+TCRPDRTLS+APG
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 (366), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 105/288 (36%), Positives = 154/288 (53%), Gaps = 9/288 (3%)

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

Query: 70  LAAGCSGLLLGVLHGVVCSLPRVNDIAFGIALMLLGTGLAFFLGKPFI----QPQAAMLP 125
           +A    G+L+  L   +      N +A G+AL + G GL+ F+G+ F+      Q+  +P
Sbjct: 64  MAGAVCGMLMATLFAWLALRLATNQVATGLALSIFGAGLSAFVGQRFVGLALPAQSTSVP 123

Query: 126 AIDLGAWSSNERLHHALQINALFFLGVALALLLQWGLAATRWGLALRLVGDHAETARALG 185
            +    +      H     + + ++  AL L   W L  TR GL LR VG+  E+A ALG
Sbjct: 124 LLGDLPFLGQALFHQ----HWMSYVAFALCLASIWFLYRTRAGLVLRAVGESPESAHALG 179

Query: 186 YHLTGIRIAATAAGGFLAAVGGAYLSLYYPGSWNEGLSSGQGLMAVALVIFARWQPWRCL 245
           Y + GIR  A   GG    + GAY+SL Y   W EGL +G+G +A+AL  FA W+P R L
Sbjct: 180 YSVRGIRYLALLFGGACCGLAGAYMSLVYTPMWVEGLVAGRGWIALALTAFATWRPARVL 239

Query: 246 LAALLFGAAGALGPALQAVGVTSGYYLFNAAPYALTLLIMILTCR-PD 292
           L +LLFG        LQ +GVT    + + APY  T++++ L  R PD
Sbjct: 240 LGSLLFGGVTIAQFYLQGMGVTVPSQILSMAPYLATIVVLALISRNPD 287


  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
   0.327    0.142    0.445 

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: 753,734
Number of extensions: 23311
Number of successful extensions: 148
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 148
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 (21.7 bits)
S2: 130 (54.7 bits)