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= 0002.0009.p
         (111 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300314073|ref|YP_003778165.1| amino acid ABC transporter ATPa...   182   4e-48
gi|300311565|ref|YP_003775657.1| branched-chain amino acid ABC t...    78   2e-16
gi|300313284|ref|YP_003777376.1| branched-chain amino acid ABC t...    69   1e-13
gi|300311770|ref|YP_003775862.1| branched-chain amino acid ABC t...    56   7e-10

>gi|300314073|ref|YP_003778165.1| amino acid ABC transporter ATPase
           [Herbaspirillum seropedicae SmR1]
          Length = 256

 Score =  182 bits (463), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 85/98 (86%), Positives = 93/98 (94%)

Query: 1   VPTSGQILFNGRDITMEAPAQIARQGIIRSFQISAVFPHLSVMENVRIGLQRTLGTSFHF 60
           VPTSGQILFNGRDITM+APAQIARQGIIRSFQISAVFPH+SV+ENVRIGLQR LGTSFHF
Sbjct: 56  VPTSGQILFNGRDITMDAPAQIARQGIIRSFQISAVFPHMSVLENVRIGLQRKLGTSFHF 115

Query: 61  WKSSDSLKQLNDRAMALLDEVDLTSFADTLTVDLPYGR 98
           WK+ +SLKQL++RAM LL+EVDLTSFA T TVDLPYGR
Sbjct: 116 WKNGESLKQLDERAMQLLEEVDLTSFAHTTTVDLPYGR 153


>gi|300311565|ref|YP_003775657.1| branched-chain amino acid ABC
           transporter ATPase [Herbaspirillum seropedicae SmR1]
          Length = 252

 Score = 78.2 bits (191), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 39/93 (41%), Positives = 57/93 (61%)

Query: 4   SGQILFNGRDITMEAPAQIARQGIIRSFQISAVFPHLSVMENVRIGLQRTLGTSFHFWKS 63
           +G+I  +G DIT ++P QI R G+ RSFQI+++FP LS  ENVR  L  TLG  + FW+ 
Sbjct: 60  AGRITLHGVDITRQSPQQINRLGLARSFQITSLFPRLSAFENVRCALLWTLGYRYAFWRR 119

Query: 64  SDSLKQLNDRAMALLDEVDLTSFADTLTVDLPY 96
                + + RA+ +L +V L + AD    +L Y
Sbjct: 120 MGGSHEASARALTVLQQVGLAARADVAAGELSY 152


>gi|300313284|ref|YP_003777376.1| branched-chain amino acid ABC
           transporter ATPase [Herbaspirillum seropedicae SmR1]
          Length = 257

 Score = 68.6 bits (166), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 34/97 (35%), Positives = 60/97 (61%)

Query: 2   PTSGQILFNGRDITMEAPAQIARQGIIRSFQISAVFPHLSVMENVRIGLQRTLGTSFHFW 61
           P+SG++ F G DIT        ++G+ R+FQI+ +F  L+V+E+V + +Q   G  + ++
Sbjct: 63  PSSGRVWFGGEDITALPQHARVKRGMTRTFQINTLFAGLTVLESVVLAIQERRGLQYKWY 122

Query: 62  KSSDSLKQLNDRAMALLDEVDLTSFADTLTVDLPYGR 98
           ++  S  ++ D AMALL  + L   A++LT +L YG+
Sbjct: 123 QTVASQTEVVDEAMALLASLKLAQEANSLTRNLAYGK 159


>gi|300311770|ref|YP_003775862.1| branched-chain amino acid ABC
           transporter ATPase [Herbaspirillum seropedicae SmR1]
          Length = 253

 Score = 55.8 bits (133), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 32/96 (33%), Positives = 54/96 (56%), Gaps = 2/96 (2%)

Query: 2   PTSGQILFNGRDITMEAPAQIARQGIIRSFQISAVFPHLSVMENVRIGLQRTLGTSFHFW 61
           P  G++L +G+ IT     +I R+G+ R+FQ+SA F  ++V+++V+  L       +  W
Sbjct: 55  PDRGEVLLDGQSITGLDARRIWRRGVGRTFQVSAAFSSMTVLQSVQAALLSHHRRLWQLW 114

Query: 62  KSSDSLKQLNDRAMALLDEVDLTSFADTLTVDLPYG 97
           + +DSL     +AM LLD+V + + A      L YG
Sbjct: 115 RPADSL--FRQQAMELLDQVGMAAQAQRACAVLAYG 148


  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
   0.322    0.135    0.422 

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: 336,194
Number of extensions: 11139
Number of successful extensions: 126
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 125
Number of HSP's successfully gapped: 5
Length of query: 111
Length of database: 1,619,870
Length adjustment: 73
Effective length of query: 38
Effective length of database: 1,274,215
Effective search space: 48420170
Effective search space used: 48420170
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 124 (52.4 bits)