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= 0003.0130.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|300313150|ref|YP_003777242.1| glutamate/aspartate ABC transpo...   214   1e-57
gi|300312813|ref|YP_003776905.1| glutamate/aspartate ABC transpo...    97   3e-22
gi|300313611|ref|YP_003777703.1| amino acid ABC transporter perm...    54   3e-09
gi|300311471|ref|YP_003775563.1| amino acid ABC transporter perm...    54   3e-09
gi|300309410|ref|YP_003773502.1| glutamine ABC transporter perme...    53   6e-09

>gi|300313150|ref|YP_003777242.1| glutamate/aspartate ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 249

 Score =  214 bits (546), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 109/111 (98%), Positives = 111/111 (100%)

Query: 1   MAGAALGLTPVQTYRYVLLPMAFRIIIPALTNEFAAIIKNSSVALTIGLVELTAATYSMR 60
           MAGAALGLTPVQTYRYVLLPMAFRIIIPALTNEFAAIIKNSSVALTIGLVELTAATYSMR
Sbjct: 139 MAGAALGLTPVQTYRYVLLPMAFRIIIPALTNEFAAIIKNSSVALTIGLVELTAATYSMR 198

Query: 61  EFTFQTFEALSGATIIYLIISVIALFMARLLEKVTAVPGYITGGSTSAGGH 111
           EFTFQTFEAL+GATIIY+IISVIALFMARLLEKVTAVPGYITGGSTSAGGH
Sbjct: 199 EFTFQTFEALTGATIIYVIISVIALFMARLLEKVTAVPGYITGGSTSAGGH 249


>gi|300312813|ref|YP_003776905.1| glutamate/aspartate ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 241

 Score = 97.1 bits (240), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 49/98 (50%), Positives = 70/98 (71%)

Query: 2   AGAALGLTPVQTYRYVLLPMAFRIIIPALTNEFAAIIKNSSVALTIGLVELTAATYSMRE 61
           AG ALGLT  QTY +VLLPMA RI++P LT+EF  I KNS+VA TIGL+EL A    + +
Sbjct: 140 AGLALGLTLGQTYLFVLLPMAMRIVLPPLTSEFLNIFKNSAVASTIGLLELAAQGRQLVD 199

Query: 62  FTFQTFEALSGATIIYLIISVIALFMARLLEKVTAVPG 99
           +T Q +EA    T+ Y++I++  + + R+LE+ T++PG
Sbjct: 200 YTAQPYEAFIAVTLAYMLINICVMSLMRILERKTSLPG 237


>gi|300313611|ref|YP_003777703.1| amino acid ABC transporter
           permease [Herbaspirillum seropedicae SmR1]
          Length = 247

 Score = 53.5 bits (127), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 35/96 (36%), Positives = 57/96 (59%), Gaps = 1/96 (1%)

Query: 2   AGAALGLTPVQTYRYVLLPMAFRIIIPALTNEFAAIIKNSSVALTIGLVELTAATYSMRE 61
           A A+LG+    T RYV+LP AFR ++P L NE   ++K+SS+   IGL EL  A  ++  
Sbjct: 148 AAASLGMNYGLTMRYVVLPQAFRRMLPPLGNEAITLLKDSSLVSAIGLAELAYAARTVAG 207

Query: 62  FTFQTFEALSGATIIYLIISV-IALFMARLLEKVTA 96
              + +E     +++Y  +++ +AL +ARL  K +A
Sbjct: 208 TYARYWEPYITISVLYFSMTICLALVVARLESKYSA 243


>gi|300311471|ref|YP_003775563.1| amino acid ABC transporter
           permease [Herbaspirillum seropedicae SmR1]
          Length = 221

 Score = 53.5 bits (127), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 31/92 (33%), Positives = 52/92 (56%)

Query: 2   AGAALGLTPVQTYRYVLLPMAFRIIIPALTNEFAAIIKNSSVALTIGLVELTAATYSMRE 61
           A  ++GLT  QT RY+++P A RI +P+++N   ++IK++S+   I + EL  AT  +  
Sbjct: 122 AAFSVGLTYFQTLRYIIVPQAVRIAVPSMSNTLISLIKDTSLVSVITVTELMLATKEVIA 181

Query: 62  FTFQTFEALSGATIIYLIISVIALFMARLLEK 93
            TF+       A  IY ++S+    +   LEK
Sbjct: 182 VTFRPLPLYVAAAAIYWMLSLCFEALQHRLEK 213


>gi|300309410|ref|YP_003773502.1| glutamine ABC transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 250

 Score = 53.1 bits (126), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/91 (36%), Positives = 53/91 (58%)

Query: 2   AGAALGLTPVQTYRYVLLPMAFRIIIPALTNEFAAIIKNSSVALTIGLVELTAATYSMRE 61
           A  +LG++ + T R V+LP AFR ++P L N   AI+K+SS+A  IGL EL  A  ++  
Sbjct: 151 ASRSLGMSYLATLRRVVLPQAFRRMLPPLGNNAIAIVKDSSLASAIGLAELAYAARTVSG 210

Query: 62  FTFQTFEALSGATIIYLIISVIALFMARLLE 92
              + +E     ++IY +I++    + R LE
Sbjct: 211 AYARYWEPYLTISVIYWLITLALSALVRHLE 241


  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    0.137    0.377 

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: 319,540
Number of extensions: 10415
Number of successful extensions: 70
Number of sequences better than 1.0e-08: 9
Number of HSP's gapped: 71
Number of HSP's successfully gapped: 9
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: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 124 (52.4 bits)