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= 0226.0012.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...   631   0.0  
gi|300313776|ref|YP_003777868.1| D-xylose ABC transporter peripl...   180   2e-46

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

 Score =  631 bits (1627), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 307/357 (85%), Positives = 332/357 (92%)

Query: 1   MKLKSVLAGLTLGLSMGLMAVSAQVSAQTKGLIGISMPTKSSARWIADGNNMVKVFKEKG 60
           MK+KSVL+G+ LGL + LM++SAQVSAQ+K L+G++MPTKSSARWIADGNNMVKV KEKG
Sbjct: 1   MKIKSVLSGIALGLGVTLMSISAQVSAQSKQLVGVAMPTKSSARWIADGNNMVKVLKEKG 60

Query: 61  YQTDLQYAEDDIPNQLAQIENMVTKGVKVLVIAAIDGTTLSDVLQKAADKGIKVIAYDRL 120
           YQTDLQYAEDDIPNQL+QIENM+TKG KVLVIAAIDGTTL+DVLQKAADKG+KVIAYDRL
Sbjct: 61  YQTDLQYAEDDIPNQLSQIENMLTKGAKVLVIAAIDGTTLTDVLQKAADKGVKVIAYDRL 120

Query: 121 IRNSKNVDYYATFDNYQVGVLQASYIEKALDLKSGKGPFNIELFGGSADDNNAFFFYNGA 180
           IR SKNVDYYATFDN+QVGVLQA  +EKAL LK GKGPFNIELFGGS+DDNNAFFFYNGA
Sbjct: 121 IRGSKNVDYYATFDNFQVGVLQAQSLEKALGLKEGKGPFNIELFGGSSDDNNAFFFYNGA 180

Query: 181 MSVLKPYIDKGKLVVRSKQMGMDKVATLRWDGATAQARMDNLLSAYYGNAHVDAVLSPYD 240
           MSVLKPYID GKLVVRSKQMGMDKVATLRWD ATAQARMDNLLSAYY NA V+AVLSPYD
Sbjct: 181 MSVLKPYIDSGKLVVRSKQMGMDKVATLRWDPATAQARMDNLLSAYYTNAKVNAVLSPYD 240

Query: 241 GISIGIISSLKGVGYGTPKLPMPVVTGQDAEVPSVKSIIRGEQRSTIFKDTRELAKVTVS 300
           G+SIGI+SSL+GVGYGTP+ P P V+GQDAEVPSVKSIIRGEQ STIFKDTRELAKVTV 
Sbjct: 241 GLSIGILSSLRGVGYGTPQQPFPYVSGQDAEVPSVKSIIRGEQYSTIFKDTRELAKVTVG 300

Query: 301 MVDAVLSGKAPTINDTKTYNNGVKVIPSYLLKPVSVDASNWKEVLVGSGYYTEAQVK 357
           MVDAVL GK P INDTKTYNNGVKV+PSYLLKPV VD SNWKEVLVGSGYYTEAQ+K
Sbjct: 301 MVDAVLGGKQPQINDTKTYNNGVKVVPSYLLKPVVVDKSNWKEVLVGSGYYTEAQLK 357


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

 Score =  180 bits (457), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 125/356 (35%), Positives = 196/356 (55%), Gaps = 24/356 (6%)

Query: 1   MKLKSVLAGLTLGLSMGLMAVSAQVSAQTKGLIGISMPTKSSARWIADGNNMVKVFKEKG 60
           M  K+VLA +T+  ++ ++A SA   A+    IG S+      RW  D +      ++ G
Sbjct: 4   MLKKTVLALMTV-TTLSMVAGSAMADAKNPK-IGFSIDDLRVERWARDRDFFTAAAEKLG 61

Query: 61  YQTDLQYAEDDIPNQLAQIENMVTKGVKVLVIAAIDGTTLSDVLQKAADKGIKVIAYDRL 120
            +  +Q A+     Q++QIEN++++GV V+VI   + T L++ +++A   GIKV++YDRL
Sbjct: 62  AKVYVQSADASEQRQISQIENLISRGVDVIVIVPFNATVLTNTIKEAKKAGIKVLSYDRL 121

Query: 121 IRNSKNVDYYATFDNYQVGVLQASYIEKALDLKSGKGPFNIELFGGSADDNNAFFFYNGA 180
           I N+ +VD Y +FDN +VG +QA  I K       K   N  L GGS  DNNA  F  G 
Sbjct: 122 ILNA-DVDAYISFDNEKVGEMQAEGILKV------KNKGNFFLLGGSPTDNNAKMFREGQ 174

Query: 181 MSVLKPYIDKGKLVVRSKQMGMDKVATLRWDGATAQARMDNLLSAYYGNAHVDAVLSPYD 240
           M  LKPYIDKG + +  +Q          W+   A + ++N L+A   N  +DA+++  D
Sbjct: 175 MKALKPYIDKGDIKIVGQQW------VKEWNPTEALSIVENALTA--NNNKIDAIVASND 226

Query: 241 GISIGIISSLKGVGYGTPKLPMPVVTGQDAEVPSVKSIIRGEQRSTIFKDTRELAKVTVS 300
           G + G I +L        K+P   V+GQDA++ +VK ++ G Q  T++K  +++A     
Sbjct: 227 GTAGGAIQALAAQKLAG-KVP---VSGQDADLAAVKRVVAGTQTMTVYKPLKQIATEAAK 282

Query: 301 MVDAVLSGKAPTINDTKTYNNGVKVIPSYLLKPVSVDASNWKEVLVGSGYYTEAQV 356
           +   +   + PT N    Y+NG K + S LLKP+ +   N K VLV  G+YT+AQ+
Sbjct: 283 LSVELARNEKPTYN--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    0.132    0.369 

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: 1,014,105
Number of extensions: 39153
Number of successful extensions: 141
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 136
Number of HSP's successfully gapped: 3
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: 41 (21.5 bits)
S2: 131 (55.1 bits)