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= 0168.0035.p
         (233 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate tran...   317   6e-88
gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-bind...   261   3e-71
gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate tran...    55   7e-09

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

 Score =  317 bits (812), Expect = 6e-88,   Method: Compositional matrix adjust.
 Identities = 150/165 (90%), Positives = 158/165 (95%)

Query: 1   MKLKSFVFALSAAAVFAGNAFAQAPIIIKFSHVVANDTPKGKGAERFKELAEKATKGRVK 60
           MKLKS + A++AAA+ + NAFAQ PI+IKFSHVVANDTPKGK AERFKELAEKATKGRVK
Sbjct: 1   MKLKSILLAMTAAAIVSTNAFAQQPIVIKFSHVVANDTPKGKAAERFKELAEKATKGRVK 60

Query: 61  VEVYPNSTLYKDKEELEALQLGAVQMLAPSLAKFGPLGVKEFEVFDLPYIFPSKEVLYRV 120
           +EVYPNSTLYKDKEELEALQLGAVQMLAPSLAKFGPLGVKEFEVFDLPYIFP+KEVLYRV
Sbjct: 61  IEVYPNSTLYKDKEELEALQLGAVQMLAPSLAKFGPLGVKEFEVFDLPYIFPTKEVLYRV 120

Query: 121 TEGPIGKDLFKKLEPKGITGLAYWDNGFKVMSANKPLHVPADFRG 165
           TEGPIGKDLFKKLEPKGITGLAYWDNGFKVMSANKPLH PADFRG
Sbjct: 121 TEGPIGKDLFKKLEPKGITGLAYWDNGFKVMSANKPLHHPADFRG 165



 Score =  117 bits (294), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 58/66 (87%), Positives = 61/66 (92%)

Query: 168 AIAQQENDAALAAVQKTGKTTIYRLNDKEKAEWRKALLPVQTQMADRIGKDLISAVNKEA 227
           AIAQQENDAALAAV+KTGKTT+YRL D EKAEWRKALLPVQ QMA RIGKDLI AVNKE+
Sbjct: 269 AIAQQENDAALAAVEKTGKTTVYRLTDAEKAEWRKALLPVQQQMASRIGKDLIDAVNKES 328

Query: 228 AALGQK 233
           AALGQK
Sbjct: 329 AALGQK 334


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

 Score =  261 bits (667), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 124/143 (86%), Positives = 131/143 (91%)

Query: 23  QAPIIIKFSHVVANDTPKGKGAERFKELAEKATKGRVKVEVYPNSTLYKDKEELEALQLG 82
           Q PIIIKFSHVVANDTPKGKGAERFKELAEKAT+GRVKVEVYPNSTLYKDKEELEALQLG
Sbjct: 31  QQPIIIKFSHVVANDTPKGKGAERFKELAEKATQGRVKVEVYPNSTLYKDKEELEALQLG 90

Query: 83  AVQMLAPSLAKFGPLGVKEFEVFDLPYIFPSKEVLYRVTEGPIGKDLFKKLEPKGITGLA 142
           +VQMLAPSLAKFGPLG +EFEVFDLPYIFP K VL RVTEGPIG+ LF+KLE KGI GLA
Sbjct: 91  SVQMLAPSLAKFGPLGAREFEVFDLPYIFPDKAVLKRVTEGPIGQGLFQKLEGKGIKGLA 150

Query: 143 YWDNGFKVMSANKPLHVPADFRG 165
           YWDNG KVM+AN+PLH  ADFR 
Sbjct: 151 YWDNGMKVMTANRPLHKVADFRA 173



 Score = 82.8 bits (203), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 43/87 (49%), Positives = 56/87 (64%), Gaps = 12/87 (13%)

Query: 159 VPADFRG------------GXAIAQQENDAALAAVQKTGKTTIYRLNDKEKAEWRKALLP 206
           +PAD R                IAQ+END ALAA++ +GKT +Y L+++EKAEWR+ALLP
Sbjct: 256 LPADIRSQLEAAMKQATLYANTIAQKENDDALAAIKASGKTRVYTLSEQEKAEWRRALLP 315

Query: 207 VQTQMADRIGKDLISAVNKEAAALGQK 233
           V   MA R+G DLI A+ KE+ A G K
Sbjct: 316 VHKSMAARVGADLIEAIYKESEAAGVK 342


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

 Score = 54.7 bits (130), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 39/145 (26%), Positives = 75/145 (51%), Gaps = 10/145 (6%)

Query: 29  KFSHVVANDTPKGKGAE-RFKELAE---KATKGRVKVEVYPNSTLYKDKEELEALQLGAV 84
           +F+   AN+ P       R KE+A    + +KGR+++++YPN+ L  D + L  ++ GA+
Sbjct: 37  EFTFKYANNLPVTHPMNARAKEMAAAIAEQSKGRIELQLYPNNQLGTDTDMLSQVRAGAI 96

Query: 85  QMLAPSLAKFGPLGVKEFEVFDLPYIFPSKEVLYRVTEGPIGKDLFKKLEPKGITGLAY- 143
                S    G L V   ++  + + F     ++   +G +G  + K++E +  T  A+ 
Sbjct: 97  DFFTLSPLILGTL-VPAAQISGIGFAFKDYSQVWPAMDGELGAHVRKQIEARS-TLFAFE 154

Query: 144 --WDNGFK-VMSANKPLHVPADFRG 165
             WDNG++ + ++ KP+ V  D +G
Sbjct: 155 KIWDNGYRQITNSTKPIKVAEDLKG 179


  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
   0.316    0.133    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: 623,409
Number of extensions: 24686
Number of successful extensions: 86
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 90
Number of HSP's successfully gapped: 5
Length of query: 233
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 151
Effective length of database: 1,231,600
Effective search space: 185971600
Effective search space used: 185971600
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 129 (54.3 bits)