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= 0001.0036.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...   716   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 =  716 bits (1849), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 355/357 (99%), Positives = 357/357 (100%)

Query: 1   MKIKSVLSGIALGLGVTLMSISAQVSAQSKQLVGVAMPTKSSARWIADGNNMVKVLKEKG 60
           MKIKSVLSGIALGLGVTLMSISAQVSAQSKQLVGVAMPTKSSARWIADGNNMVKVLKEKG
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 MVDAVLGGKQPQINDTKTYNNGVKVVPSYLLKPVVVDKSNWKEILVGSGYYTEAQLK 357
           MVDAVLGGKQPQINDTKTYNNGVKVVPSYLLKPVVVDKSNWKE+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 (438), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 120/360 (33%), Positives = 199/360 (55%), Gaps = 31/360 (8%)

Query: 3   IKSVLSGIALGL-GVTLMSI---SAQVSAQSKQLVGVAMPTKSSARWIADGNNMVKVLKE 58
           +K++L    L L  VT +S+   SA   A++ + +G ++      RW  D +      ++
Sbjct: 1   MKAMLKKTVLALMTVTTLSMVAGSAMADAKNPK-IGFSIDDLRVERWARDRDFFTAAAEK 59

Query: 59  KGYQTDLQYAEDDIPNQLSQIENMLTKGAKVLVIAAIDGTTLTDVLQKAADKGVKVIAYD 118
            G +  +Q A+     Q+SQIEN++++G  V+VI   + T LT+ +++A   G+KV++YD
Sbjct: 60  LGAKVYVQSADASEQRQISQIENLISRGVDVIVIVPFNATVLTNTIKEAKKAGIKVLSYD 119

Query: 119 RLIRGSKNVDYYATFDNFQVGVLQAQSLEKALGLKEGKGPFNIELFGGSSDDNNAFFFYN 178
           RLI  + +VD Y +FDN +VG +QA+      G+ + K   N  L GGS  DNNA  F  
Sbjct: 120 RLILNA-DVDAYISFDNEKVGEMQAE------GILKVKNKGNFFLLGGSPTDNNAKMFRE 172

Query: 179 GAMSVLKPYIDSGKLVVRSKQMGMDKVATLRWDPATAQARMDNLLSAFYTNAKVNAVLSP 238
           G M  LKPYID G + +  +Q          W+P  A + ++N L+A   N K++A+++ 
Sbjct: 173 GQMKALKPYIDKGDIKIVGQQW------VKEWNPTEALSIVENALTA--NNNKIDAIVAS 224

Query: 239 YDGLSIGILSSL--RGVGYGTPQQPFPYVSGQDAEVPSVKSIIRGEQYSTIFKDTRELAK 296
            DG + G + +L  + +    P      VSGQDA++ +VK ++ G Q  T++K  +++A 
Sbjct: 225 NDGTAGGAIQALAAQKLAGKVP------VSGQDADLAAVKRVVAGTQTMTVYKPLKQIAT 278

Query: 297 VTVGMVDAVLGGKQPQINDTKTYNNGVKVVPSYLLKPVVVDKSNWKEILVGSGYYTEAQL 356
               +   +   ++P  N    Y+NG K V S LLKP+++ K N K +LV  G+YT+AQ+
Sbjct: 279 EAAKLSVELARNEKPTYN--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    0.370 

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: 1,052,933
Number of extensions: 42200
Number of successful extensions: 115
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 112
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)