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= 0038.0057.p
         (225 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate tran...   167   8e-43
gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate tran...   162   2e-41
gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate tran...    99   3e-22
gi|300310440|ref|YP_003774532.1| TrapT dctQ-M fusion permease, d...    63   2e-11

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

 Score =  167 bits (422), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 77/109 (70%), Positives = 96/109 (88%)

Query: 8   QSGTTRRKLLTYGAAGAALPMSAWIAKYAHAAEFNYKFATGQDPTHPVNKRAQDAITRIK 67
           ++  +RR+LL  GA GAALP+ + +++ A+AAEFNYKFATGQDP+HPVNKRAQ AI RI+
Sbjct: 10  KTSVSRRQLLKAGAVGAALPLFSIMSRPANAAEFNYKFATGQDPSHPVNKRAQQAIDRIR 69

Query: 68  EATSGRVDIKLFPANQLGSDTDLLAQVRNGGVEFFNIAASILATLVPAA 116
           EAT GR+DIKLFPANQLGSDTDL++Q+RNGGVEFFN A+ +L+TLVPAA
Sbjct: 70  EATGGRLDIKLFPANQLGSDTDLMSQIRNGGVEFFNQASVVLSTLVPAA 118


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

 Score =  162 bits (411), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 76/113 (67%), Positives = 95/113 (84%)

Query: 4   DTLTQSGTTRRKLLTYGAAGAALPMSAWIAKYAHAAEFNYKFATGQDPTHPVNKRAQDAI 63
           D   +   TRR +L  GA GAALP+ + +++ A AAEF+YKFATGQDP+HPVNKRAQ+AI
Sbjct: 3   DERAKKQVTRRNMLKAGAVGAALPLFSILSRPASAAEFSYKFATGQDPSHPVNKRAQEAI 62

Query: 64  TRIKEATSGRVDIKLFPANQLGSDTDLLAQVRNGGVEFFNIAASILATLVPAA 116
            RI+ AT+GR++IKLFPANQLGSDTDL++QVRNGGVEFFN A ++L+TLVPAA
Sbjct: 63  DRIRNATNGRLEIKLFPANQLGSDTDLMSQVRNGGVEFFNQANTVLSTLVPAA 115


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

 Score = 98.6 bits (244), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 47/105 (44%), Positives = 70/105 (66%)

Query: 12  TRRKLLTYGAAGAALPMSAWIAKYAHAAEFNYKFATGQDPTHPVNKRAQDAITRIKEATS 71
           TRR  L   +  +A   +  ++  AHAAEF +K+A     THP+N RA++    I E + 
Sbjct: 9   TRRNFLKTASVASAAAATGLVSTSAHAAEFTFKYANNLPVTHPMNARAKEMAAAIAEQSK 68

Query: 72  GRVDIKLFPANQLGSDTDLLAQVRNGGVEFFNIAASILATLVPAA 116
           GR++++L+P NQLG+DTD+L+QVR G ++FF ++  IL TLVPAA
Sbjct: 69  GRIELQLYPNNQLGTDTDMLSQVRAGAIDFFTLSPLILGTLVPAA 113


>gi|300310440|ref|YP_003774532.1| TrapT dctQ-M fusion permease,
           dicarboxylate transport protein [Herbaspirillum
           seropedicae SmR1]
          Length = 618

 Score = 63.2 bits (152), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 38/54 (70%)

Query: 133 HLDRALGMLIEIPAAIAVVAEVGILLTSVFSRFVLHQPLVWADELASTVFLWLA 186
            L+  LG+ IEIPAA  VV EV +LL  V  RF+ + P+ WADELAS +FLWLA
Sbjct: 19  RLEHWLGLAIEIPAAALVVGEVAVLLAGVIMRFIFNNPIPWADELASILFLWLA 72


  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
   0.323    0.133    0.415 

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: 654,074
Number of extensions: 22937
Number of successful extensions: 105
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 105
Number of HSP's successfully gapped: 5
Length of query: 225
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 143
Effective length of database: 1,231,600
Effective search space: 176118800
Effective search space used: 176118800
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 129 (54.3 bits)