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= 0226.0018.p
         (485 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...   583   e-167
gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm...    65   9e-12

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

 Score =  583 bits (1503), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 287/317 (90%), Positives = 302/317 (95%), Gaps = 1/317 (0%)

Query: 1   MKMTRRTLLGAAVCMTLGLSVLS-GAVAADKPLTMGFSQVGAESEWRTANTASIKDAAKK 59
           M   RR LLGAA+C++LG S +S  A AADKPLTMGFSQVGAESEWRTANT SIKDAAK+
Sbjct: 1   MNSKRRALLGAAICLSLGSSAMSLPAFAADKPLTMGFSQVGAESEWRTANTVSIKDAAKQ 60

Query: 60  AGVNLKFADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWDTVLREAKAAKIPVILTD 119
           AGVNLKFADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGW+TVLREAKAAKIPVILTD
Sbjct: 61  AGVNLKFADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTD 120

Query: 120 RAVNVSDKSLYVTFIGSDFVEEGRRAGRWLMDRAKTMPAGDINIVELQGTVGSAPAIDRK 179
           RAVNVSDKSLYVTFIGSDFVEEGRRAGRWL+++AK+MPAGDINIVELQGTVGSAPAIDRK
Sbjct: 121 RAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLEKAKSMPAGDINIVELQGTVGSAPAIDRK 180

Query: 180 VGFEEVIKANPNLKIIRSQTGDFTRAKGKEVMEAFLKADGKKINVLYAHNDDMAIGAIQA 239
            GFEEVIK  P LKIIRSQTGDFTRAKGKEVMEAFLKA+GKKINVLYAHNDDMAIGAIQA
Sbjct: 181 AGFEEVIKGEPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMAIGAIQA 240

Query: 240 IEEAGLKPGKDIIVISIDGVKGAFEAMMAGKLNVTVECSPLLGPQLMSIAKDVKAGKEVP 299
           IEEAG+KPGKDII+ISIDGVKGAFEAMMAGKLNVTVECSPLLGPQLM IAKD+KAGKEVP
Sbjct: 241 IEEAGMKPGKDIIIISIDGVKGAFEAMMAGKLNVTVECSPLLGPQLMQIAKDIKAGKEVP 300

Query: 300 KRITTEEGVFPAEVAAK 316
           KRITTEEG+FPAEVAAK
Sbjct: 301 KRITTEEGIFPAEVAAK 317


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

 Score = 65.5 bits (158), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 86/309 (27%), Positives = 144/309 (46%), Gaps = 25/309 (8%)

Query: 3   MTRRTLLGAAVCMTLGLSVLSGAVAAD-KPLTMGFSQVGAESEWRTANTASIKDAAKKAG 61
           M +  LLGAA    LGL+   GA AA  +   +     G + ++  A  A    A K   
Sbjct: 1   MFKNKLLGAA----LGLAFAMGASAAQAQEAYIPLISKGFQHQFWQAVKAGADQAGKDYK 56

Query: 62  VNLKFA--DAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWDTVLREAKAAKIPVILTD 119
           V + F   + +   + Q+  + + +A+K   I F+ +       +L++A+AAKIPV+  D
Sbjct: 57  VKVTFEGPETEAMVDKQIDMLSAALAKKPQAIGFAALDSKAAIPLLKKAQAAKIPVVAFD 116

Query: 120 RAVNVSDKSLYVTFIGSDFVEEGRRAGRWLMDRAKTMPA--GDINIVELQGTVGSAPAID 177
             V   D  + VT   +D     R A     D+   +    G++ +V    T  S   +D
Sbjct: 117 SGV---DSDIPVTTATTD----NRAAAALAADKMAELVGKEGEVAVVAHDQT--SRTGVD 167

Query: 178 RKVGFEEVIK-ANPNLKIIRSQTGDFTRAKGKEVMEAFLKADGKKINVLYAHNDDMAIGA 236
           R+ GF E IK A P +K++  Q G   + K  EV ++ L+A   KI  ++  N+  AIG 
Sbjct: 168 RRDGFLERIKSAYPKIKVVSVQYGAGDQLKSTEVTKSILQAY-PKIKGIFGTNEGSAIGV 226

Query: 237 IQAIEEAGLKPGKDIIVISIDGVKGAFEAMMAGKLNVTVECSPL-LGPQLMSIAKDVKAG 295
           +  ++E   K    II+I  D  K   +A+  G +   +  +P+ +G + +  A     G
Sbjct: 227 VNGVKEMKRK----IIIIGYDSGKQQKDAIREGIMAGAITQNPVGIGYKTVEAAVKAIKG 282

Query: 296 KEVPKRITT 304
           +++PK I T
Sbjct: 283 EKLPKVIDT 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
   0.318    0.133    0.383 

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: 1,547,594
Number of extensions: 67466
Number of successful extensions: 238
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 236
Number of HSP's successfully gapped: 5
Length of query: 485
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 396
Effective length of database: 1,198,455
Effective search space: 474588180
Effective search space used: 474588180
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: 132 (55.5 bits)