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= 0045.0003.p
         (98 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate tran...   173   2e-45
gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate tran...   113   2e-27
gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate tran...   113   3e-27
gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate tran...    62   9e-12
gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-bind...    59   5e-11

>gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate
           transport system periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 344

 Score =  173 bits (439), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 80/90 (88%), Positives = 86/90 (95%)

Query: 1   MDGELGAHVRKQIDAKSTVFAFEKIWDNGYRQITNSTRPINKPEDLKGMKLRVPPSPLWT 60
           MDGELGAHVRKQI+A+ST+FAFEKIWDNGYRQITNST+PI   EDLKGMKLRVPPSPLWT
Sbjct: 132 MDGELGAHVRKQIEARSTLFAFEKIWDNGYRQITNSTKPIKVAEDLKGMKLRVPPSPLWT 191

Query: 61  SMFRAFDSAPASINFAEVYSALQTKIVEGQ 90
           SMF+AFD+AP SINFAEVYSALQTKIVEGQ
Sbjct: 192 SMFKAFDAAPTSINFAEVYSALQTKIVEGQ 221


>gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate
           transport system periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 345

 Score =  113 bits (283), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 53/90 (58%), Positives = 67/90 (74%), Gaps = 1/90 (1%)

Query: 1   MDGELGAHVRKQIDAKSTVFAFEKIWDNGYRQITNSTRPINKPEDLKGMKLRVPPSPLWT 60
           MDG LGAHVR QI+ K  +    K WDNG+RQIT ST+P+    D+KG+KLRVP +P+ T
Sbjct: 134 MDGPLGAHVRAQIE-KVGLLTMSKPWDNGFRQITTSTKPVRNAGDVKGLKLRVPAAPMLT 192

Query: 61  SMFRAFDSAPASINFAEVYSALQTKIVEGQ 90
           S+F A  ++P  INF EVYS+LQTK+VEGQ
Sbjct: 193 SLFSALGASPTPINFNEVYSSLQTKLVEGQ 222


>gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate
           transport system periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 348

 Score =  113 bits (282), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 54/90 (60%), Positives = 67/90 (74%), Gaps = 1/90 (1%)

Query: 1   MDGELGAHVRKQIDAKSTVFAFEKIWDNGYRQITNSTRPINKPEDLKGMKLRVPPSPLWT 60
           MDG LGA+VR QI+ K  +    K WDNG+RQIT ST+PI    DLKG+KLRVP +P+ T
Sbjct: 137 MDGPLGAYVRAQIE-KVGLLTMSKPWDNGFRQITTSTKPIKTAADLKGLKLRVPAAPMLT 195

Query: 61  SMFRAFDSAPASINFAEVYSALQTKIVEGQ 90
           S+F A  ++P  INF EVYS+LQTK+VEGQ
Sbjct: 196 SLFSALGASPTPINFNEVYSSLQTKLVEGQ 225


>gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate
           transport system periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 334

 Score = 62.0 bits (149), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 30/89 (33%), Positives = 56/89 (62%), Gaps = 5/89 (5%)

Query: 2   DGELGAHVRKQIDAKS-TVFAFEKIWDNGYRQITNSTRPINKPEDLKGMKLRVPPSPLWT 60
           +G +G  + K+++ K  T  A+   WDNG++ + ++ +P++ P D +G+K+R+  S +  
Sbjct: 122 EGPIGKDLFKKLEPKGITGLAY---WDNGFK-VMSANKPLHHPADFRGLKMRIQSSKVLD 177

Query: 61  SMFRAFDSAPASINFAEVYSALQTKIVEG 89
           +  RA  + P  + F+EVY ALQT +V+G
Sbjct: 178 AQMRALGANPQVLAFSEVYQALQTGVVDG 206


>gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-binding
           periplasmic protein [Herbaspirillum seropedicae SmR1]
          Length = 344

 Score = 59.3 bits (142), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 25/64 (39%), Positives = 41/64 (64%), Gaps = 1/64 (1%)

Query: 26  WDNGYRQITNSTRPINKPEDLKGMKLRVPPSPLWTSMFRAFDSAPASINFAEVYSALQTK 85
           WDNG + +T + RP++K  D + +K+R+  S +    FRA  + P  + F+EVY A+QT 
Sbjct: 152 WDNGMKVMT-ANRPLHKVADFRALKMRIQSSKVLDEQFRALKANPQVLAFSEVYQAMQTG 210

Query: 86  IVEG 89
           +V+G
Sbjct: 211 VVDG 214


  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
   0.319    0.133    0.421 

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: 283,960
Number of extensions: 9124
Number of successful extensions: 17
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 15
Number of HSP's successfully gapped: 5
Length of query: 98
Length of database: 1,619,870
Length adjustment: 67
Effective length of query: 31
Effective length of database: 1,302,625
Effective search space: 40381375
Effective search space used: 40381375
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 (21.8 bits)
S2: 123 (52.0 bits)