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= 0016.0111.p
         (144 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasm...   276   6e-76
gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasm...    54   6e-09

>gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 335

 Score =  276 bits (705), Expect = 6e-76,   Method: Compositional matrix adjust.
 Identities = 139/144 (96%), Positives = 140/144 (97%), Gaps = 2/144 (1%)

Query: 1   MNKKSACVLVSALAAVGFASALQAQNKPIDIVTVVKITGISWFNRMEVGVKEFAAANPGV 60
           MNKKSACVLVSALAAVGFASALQAQNKPIDIVTVVKITGISWFNRMEVGVKEFAAANPGV
Sbjct: 2   MNKKSACVLVSALAAVGFASALQAQNKPIDIVTVVKITGISWFNRMEVGVKEFAAANPGV 61

Query: 61  TTRQIGPAQSDAAQQQRLVEDLVAKKVDAIAVVSMDPPTLEPVLKRALDRGIKVVTHEAD 120
           TTRQIGPAQSDAAQQQRLVEDLVAKKVDAIAVVSMDPPTLEPVLKRALDRGIKVVTHEAD
Sbjct: 62  TTRQIGPAQSDAAQQQRLVEDLVAKKVDAIAVVSMDPPTLEPVLKRALDRGIKVVTHEAD 121

Query: 121 NQKNTLVDIEAFDNTVGAQGRRLH 144
           NQKNTLVDIEAFDNT  A G RL+
Sbjct: 122 NQKNTLVDIEAFDNT--AYGARLN 143


>gi|300313729|ref|YP_003777821.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 344

 Score = 53.5 bits (127), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 32/91 (35%), Positives = 48/91 (52%)

Query: 29  IDIVTVVKITGISWFNRMEVGVKEFAAANPGVTTRQIGPAQSDAAQQQRLVEDLVAKKVD 88
           + I  VVK  G  +F+    G KE A     V     GP    A  Q  +V  L+++KVD
Sbjct: 39  VRIAMVVKSLGNGFFDAAHEGAKEAARELGDVEVIYTGPTTPTAEGQIEIVNSLISQKVD 98

Query: 89  AIAVVSMDPPTLEPVLKRALDRGIKVVTHEA 119
           AI + + D   L P+ KRA+ RG+KV++ ++
Sbjct: 99  AIVISANDANALVPITKRAMQRGVKVLSFDS 129


  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
   0.317    0.130    0.359 

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: 376,568
Number of extensions: 13677
Number of successful extensions: 65
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 65
Number of HSP's successfully gapped: 3
Length of query: 144
Length of database: 1,619,870
Length adjustment: 77
Effective length of query: 67
Effective length of database: 1,255,275
Effective search space: 84103425
Effective search space used: 84103425
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 (21.7 bits)
S2: 126 (53.1 bits)