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= 0020.0529.p
         (324 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasm...   652   0.0  
gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm...    70   3e-13

>gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 324

 Score =  652 bits (1682), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 324/324 (100%), Positives = 324/324 (100%)

Query: 1   MNSKRRALLGAAICLSLGSSAMSLPAFAADKPLTMGFSQVGAESEWRTANTVSIKDAAKQ 60
           MNSKRRALLGAAICLSLGSSAMSLPAFAADKPLTMGFSQVGAESEWRTANTVSIKDAAKQ
Sbjct: 1   MNSKRRALLGAAICLSLGSSAMSLPAFAADKPLTMGFSQVGAESEWRTANTVSIKDAAKQ 60

Query: 61  AGVNLKFADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTD 120
           AGVNLKFADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTD
Sbjct: 61  AGVNLKFADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTD 120

Query: 121 RAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLEKAKSMPAGDINIVELQGTVGSAPAIDRK 180
           RAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLEKAKSMPAGDINIVELQGTVGSAPAIDRK
Sbjct: 121 RAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLEKAKSMPAGDINIVELQGTVGSAPAIDRK 180

Query: 181 AGFEEVIKGEPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMAIGAIQA 240
           AGFEEVIKGEPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMAIGAIQA
Sbjct: 181 AGFEEVIKGEPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMAIGAIQA 240

Query: 241 IEEAGMKPGKDIIIISIDGVKGAFEAMMAGKLNVTVECSPLLGPQLMQIAKDIKAGKEVP 300
           IEEAGMKPGKDIIIISIDGVKGAFEAMMAGKLNVTVECSPLLGPQLMQIAKDIKAGKEVP
Sbjct: 241 IEEAGMKPGKDIIIISIDGVKGAFEAMMAGKLNVTVECSPLLGPQLMQIAKDIKAGKEVP 300

Query: 301 KRITTEEGIFPAEVAAKEFPNRKY 324
           KRITTEEGIFPAEVAAKEFPNRKY
Sbjct: 301 KRITTEEGIFPAEVAAKEFPNRKY 324


>gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 312

 Score = 70.1 bits (170), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 87/312 (27%), Positives = 148/312 (47%), Gaps = 34/312 (10%)

Query: 5   RRALLGAAICLSLGSSAMSLPAFAADKPL-TMGFSQVGAESEWRTANTVSIKDAAKQAGV 63
           +  LLGAA+ L+    A +  A  A  PL + GF        W+     ++K  A QAG 
Sbjct: 3   KNKLLGAALGLAFAMGASAAQAQEAYIPLISKGFQH----QFWQ-----AVKAGADQAGK 53

Query: 64  NLKFA------DAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVI 117
           + K        + +   + Q+  + + +A+K   I F+ +       +L++A+AAKIPV+
Sbjct: 54  DYKVKVTFEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVV 113

Query: 118 LTDRAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLEKAKSMPA--GDINIVELQGTVGSAP 175
             D  V   D  + VT   +D     R A     +K   +    G++ +V    T  S  
Sbjct: 114 AFDSGV---DSDIPVTTATTD----NRAAAALAADKMAELVGKEGEVAVVAHDQT--SRT 164

Query: 176 AIDRKAGFEEVIK-GEPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMA 234
            +DR+ GF E IK   P++K++  Q G   + K  EV ++ L+A   KI  ++  N+  A
Sbjct: 165 GVDRRDGFLERIKSAYPKIKVVSVQYGAGDQLKSTEVTKSILQAY-PKIKGIFGTNEGSA 223

Query: 235 IGAIQAIEEAGMKPGKDIIIISIDGVKGAFEAMMAGKLNVTVECSPL-LGPQLMQIAKDI 293
           IG +  ++E  MK  + IIII  D  K   +A+  G +   +  +P+ +G + ++ A   
Sbjct: 224 IGVVNGVKE--MK--RKIIIIGYDSGKQQKDAIREGIMAGAITQNPVGIGYKTVEAAVKA 279

Query: 294 KAGKEVPKRITT 305
             G+++PK I T
Sbjct: 280 IKGEKLPKVIDT 291


  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    0.132    0.365 

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: 884,347
Number of extensions: 33522
Number of successful extensions: 135
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 132
Number of HSP's successfully gapped: 5
Length of query: 324
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 239
Effective length of database: 1,217,395
Effective search space: 290957405
Effective search space used: 290957405
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: 131 (55.1 bits)