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= 0004.0118.p
         (130 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase [H...    55   2e-09
gi|300311881|ref|YP_003775973.1| amino acid ABC transporter ATPa...    55   3e-09
gi|300311741|ref|YP_003775833.1| sugar ABC transporter ATPase [H...    53   7e-09

>gi|300310063|ref|YP_003774155.1| sugar ABC transporter ATPase
          [Herbaspirillum seropedicae SmR1]
          Length = 521

 Score = 54.7 bits (130), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 41/72 (56%)

Query: 1  VPVLQTRQLAVCAGGRVLLQALDWQVRAGEFWCVLGRNGVGKSSLLHVLAGLQAAHGGEV 60
           P+LQ R +    G  + L  +   +R GE   ++G NG GKS+L+ VL+G+ A   GE+
Sbjct: 4  TPLLQMRGIRKSFGATLALSDMHLTIRPGEIHALMGENGAGKSTLMKVLSGVHAPDQGEI 63

Query: 61 LLQGRALSSFSP 72
          LL GR ++   P
Sbjct: 64 LLDGRPVALRDP 75


>gi|300311881|ref|YP_003775973.1| amino acid ABC transporter ATPase
           [Herbaspirillum seropedicae SmR1]
          Length = 293

 Score = 54.7 bits (130), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 32/102 (31%), Positives = 54/102 (52%), Gaps = 3/102 (2%)

Query: 3   VLQTRQLAVCAGGRVLLQALDWQVRAGEFWCVLGRNGVGKSSLLHVLAGLQAAHGGEVLL 62
           +L  + +++  GG   L  + + VR  E   ++G NG GKSS+++V+ G+     G +L 
Sbjct: 42  ILDLQNISLSFGGVKALTDISFDVREHEIRAIIGPNGAGKSSMINVINGVYHPQKGRILY 101

Query: 63  QGRALSSFSPSQLALQRGLLLQHQQDAF--SLPVLDAVMAGR 102
           +G+  +   PS +A Q G+    Q  A    + VLD +M GR
Sbjct: 102 RGQPRAGMHPSAIARQ-GIARTFQNIALFKGMTVLDNIMTGR 142


>gi|300311741|ref|YP_003775833.1| sugar ABC transporter ATPase
          [Herbaspirillum seropedicae SmR1]
          Length = 263

 Score = 53.1 bits (126), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 33/93 (35%), Positives = 55/93 (59%), Gaps = 2/93 (2%)

Query: 3  VLQTRQLAVCAGGRVLLQALDWQVRAGEFWCVLGRNGVGKSSLLHVLAGLQAAHGGEVLL 62
          +L+  Q++   G  + LQ +  ++R GE  C+LG NG GKS+L+ +LAG+  A  G+ L+
Sbjct: 8  ILELDQVSKFFGPVIALQNVSLRLRRGEVHCLLGDNGAGKSTLIKLLAGVHQASSGQYLV 67

Query: 63 QGRALSSFSPSQLALQRGLLLQHQQDAFSLPVL 95
           G+ +   SP + AL  G+   +Q  A  +P+L
Sbjct: 68 DGKPVRFESPKE-ALDVGVATVYQDLAL-VPLL 98


  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    0.140    0.448 

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: 461,935
Number of extensions: 19440
Number of successful extensions: 240
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 246
Number of HSP's successfully gapped: 5
Length of query: 130
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 55
Effective length of database: 1,264,745
Effective search space: 69560975
Effective search space used: 69560975
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: 125 (52.8 bits)