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= 0031.0108.p
         (266 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A...   170   1e-43
gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A...    94   1e-20
gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A...    72   5e-14
gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A...    64   1e-11

>gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 324

 Score =  170 bits (431), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 93/150 (62%), Positives = 120/150 (80%)

Query: 1   VIAAFGLDQPLWVQYFYFIKNALAGDMGRSFVYATPALGLILERLPATLELAVAAILIAI 60
           +I   GLDQP+W QY  F+  AL G++G SFVY TPA+ LI +RLPATLELA AA+L+A+
Sbjct: 50  IIQELGLDQPVWRQYLAFLNGALHGNLGNSFVYNTPAILLIFQRLPATLELACAALLLAL 109

Query: 61  VIGLPLGLWAGLRPKSFAGKTIMTVSIFGFSLPTFWVGLMLIMVFAVELGWLPTGGRGQT 120
           V+G+PLGL+AG++P     + +MT SIFGFSLPTFW+GLMLIM F+V LGWLP+GGRGQT
Sbjct: 110 VVGVPLGLFAGMKPDHPFSRLVMTTSIFGFSLPTFWIGLMLIMAFSVTLGWLPSGGRGQT 169

Query: 121 ALLFGIPFGFPTWDGLRHLLMPALNLSLFN 150
           A LFG+ + + T DG RH+++PA+NLSLF 
Sbjct: 170 AELFGVQWSWLTADGWRHMILPAINLSLFK 199


>gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 305

 Score = 94.4 bits (233), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 49/148 (33%), Positives = 85/148 (57%), Gaps = 16/148 (10%)

Query: 5   FGLDQPLWVQYFYFIKNALAGDMGRSFVYATPALGLILERLPATLELAVAAILIAIVIGL 64
           FGLD+P+  QY  ++  A+  D G+SF +  P + +I ERLP T +L  +A+L+A++  +
Sbjct: 54  FGLDRPMATQYLDWLGRAVQLDFGKSFYFQGPVMEMIAERLPITFKLGGSALLLAVLTAI 113

Query: 65  PLGLWAGLRPKSFAGKTIMTVSIFGFSLPTFWVGLMLIMVFAVELGWLPTGGRGQTALLF 124
           PLG+ A +   ++  +  + +++ G ++P+FW GL LI++FAV L WLP  G        
Sbjct: 114 PLGVLAAIYRDTWLDRAALLIAVVGQAMPSFWFGLTLILIFAVTLHWLPVAGN------- 166

Query: 125 GIPFGFPTWDGLRHLLMPALNLSLFNXP 152
                  +W   +H ++PA+ L  +  P
Sbjct: 167 ------ESW---QHFILPAVALGYYAMP 185


>gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 306

 Score = 72.0 bits (175), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 44/114 (38%), Positives = 65/114 (57%)

Query: 3   AAFGLDQPLWVQYFYFIKNALAGDMGRSFVYATPALGLILERLPATLELAVAAILIAIVI 62
           A  GLD+PL  Q+  F  NA  GD G S     P    I  R   TL L V A++ A++ 
Sbjct: 53  ADLGLDKPLPEQFVNFFLNAARGDFGHSIRTKRPVSEEISARFWPTLWLTVVAMVWAVLF 112

Query: 63  GLPLGLWAGLRPKSFAGKTIMTVSIFGFSLPTFWVGLMLIMVFAVELGWLPTGG 116
           GL +G+ + +    +  +  MT+++ G S P F +G++L+ VF+V+LGWLPT G
Sbjct: 113 GLIIGISSAVWRNQWPDRLGMTLAVSGISFPAFSLGILLVQVFSVKLGWLPTVG 166


>gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 318

 Score = 64.3 bits (155), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 37/108 (34%), Positives = 64/108 (59%)

Query: 5   FGLDQPLWVQYFYFIKNALAGDMGRSFVYATPALGLILERLPATLELAVAAILIAIVIGL 64
           +GLD P  ++Y +++ N L+G+ G S V   P   +I  RLPA+L LA    L+++ + L
Sbjct: 59  YGLDLPAPLRYAHWLGNLLSGNPGMSLVNNVPVAQMIGGRLPASLMLAAVTALVSVPLAL 118

Query: 65  PLGLWAGLRPKSFAGKTIMTVSIFGFSLPTFWVGLMLIMVFAVELGWL 112
            LG+++ +   SF  + +   ++   S+P F V  + +M+FAV+L WL
Sbjct: 119 FLGIFSAMYRGSFFDRAVNVSAVSMVSVPEFLVATVAVMIFAVKLRWL 166


  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
   0.329    0.144    0.471 

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: 814,996
Number of extensions: 32271
Number of successful extensions: 143
Number of sequences better than 1.0e-08: 6
Number of HSP's gapped: 143
Number of HSP's successfully gapped: 6
Length of query: 266
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 182
Effective length of database: 1,222,130
Effective search space: 222427660
Effective search space used: 222427660
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 (21.8 bits)
S2: 130 (54.7 bits)