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= 0045.0001.p
         (167 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...   186   7e-49
gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate tran...   127   5e-31
gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate tran...   125   1e-30
gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate tran...    55   2e-09

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

 Score =  186 bits (473), Expect = 7e-49,   Method: Compositional matrix adjust.
 Identities = 85/103 (82%), Positives = 95/103 (92%)

Query: 64  KIVEGQENPMAIISTAKLYEVQKFCSMTNHMWDGFWFLANKKSFERLPKDLQEIVTRNIN 123
           KIVEGQENPMAIISTAKLYEVQK+CS+TNHMWDGFWFL NKKSFERLPKDLQE++TR IN
Sbjct: 216 KIVEGQENPMAIISTAKLYEVQKYCSITNHMWDGFWFLGNKKSFERLPKDLQELMTRIIN 275

Query: 124 EAGMKQRADVKALNDSLATEMKGKGLAFNDTDNEAFRAKLRSA 166
           EAG+ QRADV+ LNDSL  EMKGKGLAFN+ D ++FRAKLR+A
Sbjct: 276 EAGVNQRADVRKLNDSLVDEMKGKGLAFNNADADSFRAKLRAA 318


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

 Score =  127 bits (319), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 57/133 (42%), Positives = 89/133 (66%), Gaps = 9/133 (6%)

Query: 40  RISSAEQVIR-FTRIGNKPTKTKI--------XKIVEGQENPMAIISTAKLYEVQKFCSM 90
           R+ +A  +   F+ +G  PT             K+VEGQENP+AIISTA+LYEVQKFC++
Sbjct: 187 RVPAAPMLTSLFSALGASPTPINFNEVYSSLQTKLVEGQENPLAIISTARLYEVQKFCTI 246

Query: 91  TNHMWDGFWFLANKKSFERLPKDLQEIVTRNINEAGMKQRADVKALNDSLATEMKGKGLA 150
           +NH+WD +W L N+++FE+LPKD+QEIV R +++A   +RAD+ +L+     +++GKG+ 
Sbjct: 247 SNHVWDAYWILGNRRAFEKLPKDIQEIVRRELDKAATDERADIASLSGFARNDLQGKGVQ 306

Query: 151 FNDTDNEAFRAKL 163
             + D  +F+  L
Sbjct: 307 IIEADKNSFKEAL 319


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

 Score =  125 bits (315), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 58/136 (42%), Positives = 88/136 (64%), Gaps = 9/136 (6%)

Query: 40  RISSAEQVIR-FTRIGNKPTKTKI--------XKIVEGQENPMAIISTAKLYEVQKFCSM 90
           R+ +A  +   F+ +G  PT             K+VEGQENP+AIISTA+LYEVQKFC++
Sbjct: 184 RVPAAPMLTSLFSALGASPTPINFNEVYSSLQTKLVEGQENPLAIISTARLYEVQKFCTI 243

Query: 91  TNHMWDGFWFLANKKSFERLPKDLQEIVTRNINEAGMKQRADVKALNDSLATEMKGKGLA 150
           +NH+WD +W L N+++FE+LPKD+QEIV R +++A   +RAD+ A +     ++  KGL 
Sbjct: 244 SNHVWDAYWILGNRRAFEKLPKDIQEIVRRELDKAASDERADIAAFSGFARNDLASKGLQ 303

Query: 151 FNDTDNEAFRAKLRSA 166
             + D ++F+  L  A
Sbjct: 304 IVEADKDSFKEALARA 319


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

 Score = 55.5 bits (132), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 47/154 (30%), Positives = 78/154 (50%), Gaps = 15/154 (9%)

Query: 20  ADFREER---QCRHRLGIQI-ALGRISSAEQVIRFTRIGNKPTKTKIXKIVEGQENPMAI 75
           ADFR  +   Q    L  Q+ ALG   +  QV+ F+ +     +     +V+G ENP + 
Sbjct: 161 ADFRGLKMRIQSSKVLDAQMRALG---ANPQVLAFSEV----YQALQTGVVDGTENPPSN 213

Query: 76  ISTAKLYEVQKFCSMTNHMWDGFWFLANKKSFERLPKDLQEIVTRNINEAGMKQRADVKA 135
           + T K++EVQK  +++NH + G+  + NKK ++ LP D++  +   + +A     A  + 
Sbjct: 214 LYTQKMHEVQKHVTVSNHGYLGYAVIVNKKFWDGLPSDIRTQLEGAMKDATKYANAIAQQ 273

Query: 136 LNDS--LATEMKGKGLAFNDTDNEAFRAKLRSAC 167
            ND+   A E  GK   +  TD E  +A+ R A 
Sbjct: 274 ENDAALAAVEKTGKTTVYRLTDAE--KAEWRKAL 305


  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
   0.320    0.132    0.386 

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: 411,887
Number of extensions: 13158
Number of successful extensions: 33
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 33
Number of HSP's successfully gapped: 4
Length of query: 167
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 88
Effective length of database: 1,245,805
Effective search space: 109630840
Effective search space used: 109630840
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: 127 (53.5 bits)