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= 0001.0830.p
         (357 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310370|ref|YP_003774462.1| sugar ABC transporter periplasm...   710   0.0  
gi|300313776|ref|YP_003777868.1| D-xylose ABC transporter peripl...   173   2e-44

>gi|300310370|ref|YP_003774462.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 357

 Score =  710 bits (1833), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 352/357 (98%), Positives = 355/357 (99%)

Query: 1   MKIKSVLGGIALGLGVTLMSISAQVSAQSKALVGVAMPTKSSARWIADGNNMVKVLKEKG 60
           MKIKSVL GIALGLGVTLMSISAQVSAQSK LVGVAMPTKSSARWIADGNNMVKVLKEKG
Sbjct: 1   MKIKSVLSGIALGLGVTLMSISAQVSAQSKQLVGVAMPTKSSARWIADGNNMVKVLKEKG 60

Query: 61  YQTDLQYAEDDIPNQLSQIENMLTKGAKVLVIAAIDGTTLTDVLQKAADKGVKVIAYDRL 120
           YQTDLQYAEDDIPNQLSQIENMLTKGAKVLVIAAIDGTTLTDVLQKAADKGVKVIAYDRL
Sbjct: 61  YQTDLQYAEDDIPNQLSQIENMLTKGAKVLVIAAIDGTTLTDVLQKAADKGVKVIAYDRL 120

Query: 121 IRGSKNVDYYATFDNFQVGVLQAQSLEKALGLKEGKGPFNIELFGGSSDDNNAFFFYNGA 180
           IRGSKNVDYYATFDNFQVGVLQAQSLEKALGLKEGKGPFNIELFGGSSDDNNAFFFYNGA
Sbjct: 121 IRGSKNVDYYATFDNFQVGVLQAQSLEKALGLKEGKGPFNIELFGGSSDDNNAFFFYNGA 180

Query: 181 MSVLKPYIDSGKLVVRSKQMGMDKVATLRWDPATAQARMDNLLSAFYTNAKVNAVLSPYD 240
           MSVLKPYIDSGKLVVRSKQMGMDKVATLRWDPATAQARMDNLLSA+YTNAKVNAVLSPYD
Sbjct: 181 MSVLKPYIDSGKLVVRSKQMGMDKVATLRWDPATAQARMDNLLSAYYTNAKVNAVLSPYD 240

Query: 241 GLSIGILSSLRGVGYGTPQQPFPYVSGQDAEVPSVKSIIRGEQYSTIFKDTRELAKVTVG 300
           GLSIGILSSLRGVGYGTPQQPFPYVSGQDAEVPSVKSIIRGEQYSTIFKDTRELAKVTVG
Sbjct: 241 GLSIGILSSLRGVGYGTPQQPFPYVSGQDAEVPSVKSIIRGEQYSTIFKDTRELAKVTVG 300

Query: 301 MVDALLGGKQPQINDTKTYNNGVKVVPSYLLKPVVVDKSNWKEILVGSGYYTEAQLK 357
           MVDA+LGGKQPQINDTKTYNNGVKVVPSYLLKPVVVDKSNWKE+LVGSGYYTEAQLK
Sbjct: 301 MVDAVLGGKQPQINDTKTYNNGVKVVPSYLLKPVVVDKSNWKEVLVGSGYYTEAQLK 357


>gi|300313776|ref|YP_003777868.1| D-xylose ABC transporter
           periplasmic protein [Herbaspirillum seropedicae SmR1]
          Length = 338

 Score =  173 bits (439), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 117/350 (33%), Positives = 191/350 (54%), Gaps = 27/350 (7%)

Query: 10  IALGLGVTLMSISAQVSAQSK-ALVGVAMPTKSSARWIADGNNMVKVLKEKGYQTDLQYA 68
           +AL    TL  ++    A +K   +G ++      RW  D +      ++ G +  +Q A
Sbjct: 10  LALMTVTTLSMVAGSAMADAKNPKIGFSIDDLRVERWARDRDFFTAAAEKLGAKVYVQSA 69

Query: 69  EDDIPNQLSQIENMLTKGAKVLVIAAIDGTTLTDVLQKAADKGVKVIAYDRLIRGSKNVD 128
           +     Q+SQIEN++++G  V+VI   + T LT+ +++A   G+KV++YDRLI  + +VD
Sbjct: 70  DASEQRQISQIENLISRGVDVIVIVPFNATVLTNTIKEAKKAGIKVLSYDRLILNA-DVD 128

Query: 129 YYATFDNFQVGVLQAQSLEKALGLKEGKGPFNIELFGGSSDDNNAFFFYNGAMSVLKPYI 188
            Y +FDN +VG +QA+      G+ + K   N  L GGS  DNNA  F  G M  LKPYI
Sbjct: 129 AYISFDNEKVGEMQAE------GILKVKNKGNFFLLGGSPTDNNAKMFREGQMKALKPYI 182

Query: 189 DSGKLVVRSKQMGMDKVATLRWDPATAQARMDNLLSAFYTNAKVNAVLSPYDGLSIGILS 248
           D G + +  +Q          W+P  A + ++N L+A   N K++A+++  DG + G + 
Sbjct: 183 DKGDIKIVGQQW------VKEWNPTEALSIVENALTA--NNNKIDAIVASNDGTAGGAIQ 234

Query: 249 SL--RGVGYGTPQQPFPYVSGQDAEVPSVKSIIRGEQYSTIFKDTRELAKVTVGMVDALL 306
           +L  + +    P      VSGQDA++ +VK ++ G Q  T++K  +++A     +   L 
Sbjct: 235 ALAAQKLAGKVP------VSGQDADLAAVKRVVAGTQTMTVYKPLKQIATEAAKLSVELA 288

Query: 307 GGKQPQINDTKTYNNGVKVVPSYLLKPVVVDKSNWKEILVGSGYYTEAQL 356
             ++P  N    Y+NG K V S LLKP+++ K N K +LV  G+YT+AQ+
Sbjct: 289 RNEKPTYN--AQYDNGFKKVDSLLLKPILLTKENVK-VLVDDGFYTQAQI 335


  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
   0.315    0.133    0.371 

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: 1,059,560
Number of extensions: 42472
Number of successful extensions: 110
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 107
Number of HSP's successfully gapped: 2
Length of query: 357
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 271
Effective length of database: 1,212,660
Effective search space: 328630860
Effective search space used: 328630860
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: 42 (22.0 bits)
S2: 131 (55.1 bits)