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= 0032.0125.p
         (289 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313776|ref|YP_003777868.1| D-xylose ABC transporter peripl...   434   e-123
gi|300310370|ref|YP_003774462.1| sugar ABC transporter periplasm...   121   7e-29

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

 Score =  434 bits (1115), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 218/262 (83%), Positives = 232/262 (88%), Gaps = 3/262 (1%)

Query: 1   MNAILKKSVLALMAATTMSLVAGGAMADAKNPKIGFSIDDLRVERWARDRDFFTAAAEKL 60
           M A+LKK+VLALM  TT+S+VAG AMADAKNPKIGFSIDDLRVERWARDRDFFTAAAEKL
Sbjct: 1   MKAMLKKTVLALMTVTTLSMVAGSAMADAKNPKIGFSIDDLRVERWARDRDFFTAAAEKL 60

Query: 61  GAKVFVQSADASEARQISQIENLISRGVDVIVIVPFNATVLTNTIKEAKKAGIKVLSYDR 120
           GAKV+VQSADASE RQISQIENLISRGVDVIVIVPFNATVLTNTIKEAKKAGIKVLSYDR
Sbjct: 61  GAKVYVQSADASEQRQISQIENLISRGVDVIVIVPFNATVLTNTIKEAKKAGIKVLSYDR 120

Query: 121 LILNADVDAYISFDNEKVGEMQAEGVIKAQSKGNFYLLGGSPTDNNAKMLREGQMKVLKP 180
           LILNADVDAYISFDNEKVGEMQAEG++K ++KGNF+LLGGSPTDNNAKM REGQMK LKP
Sbjct: 121 LILNADVDAYISFDNEKVGEMQAEGILKVKNKGNFFLLGGSPTDNNAKMFREGQMKALKP 180

Query: 181 LIDKGDIKIVGQQWVKDWNPTEALSIVENALTANNNKIDAIVASNDGTAGRHPGTGGAKA 240
            IDKGDIKIVGQQWVK+WNPTEALSIVENALTANNNKIDAIVASNDGTAG   G   A A
Sbjct: 181 YIDKGDIKIVGQQWVKEWNPTEALSIVENALTANNNKIDAIVASNDGTAG---GAIQALA 237

Query: 241 GRQGTGIGPGRRPRGDQARCRR 262
            ++  G  P      D A  +R
Sbjct: 238 AQKLAGKVPVSGQDADLAAVKR 259


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

 Score =  121 bits (304), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 88/265 (33%), Positives = 141/265 (53%), Gaps = 25/265 (9%)

Query: 7   KSVL---ALMAATTMSLVAGGAMADAKNPKIGFSIDDLRVERWARDRDFFTAAAEKLGAK 63
           KSVL   AL    T+  ++    A +K   +G ++      RW  D +      ++ G +
Sbjct: 4   KSVLSGIALGLGVTLMSISAQVSAQSKQ-LVGVAMPTKSSARWIADGNNMVKVLKEKGYQ 62

Query: 64  VFVQSADASEARQISQIENLISRGVDVIVIVPFNATVLTNTIKEAKKAGIKVLSYDRLIL 123
             +Q A+     Q+SQIEN++++G  V+VI   + T LT+ +++A   G+KV++YDRLI 
Sbjct: 63  TDLQYAEDDIPNQLSQIENMLTKGAKVLVIAAIDGTTLTDVLQKAADKGVKVIAYDRLIR 122

Query: 124 NA-DVDAYISFDNEKVGEMQAEGVIKA----QSKG--NFYLLGGSPTDNNAKMLREGQMK 176
            + +VD Y +FDN +VG +QA+ + KA    + KG  N  L GGS  DNNA     G M 
Sbjct: 123 GSKNVDYYATFDNFQVGVLQAQSLEKALGLKEGKGPFNIELFGGSSDDNNAFFFYNGAMS 182

Query: 177 VLKPLIDKGDIKIVGQQWVKD------WNPTEALSIVENALTA--NNNKIDAIVASNDGT 228
           VLKP ID G + +  +Q   D      W+P  A + ++N L+A   N K++A+++  DG 
Sbjct: 183 VLKPYIDSGKLVVRSKQMGMDKVATLRWDPATAQARMDNLLSAYYTNAKVNAVLSPYDGL 242

Query: 229 AGRHPGTGGAKAGRQGTGIGPGRRP 253
                 + G  +  +G G G  ++P
Sbjct: 243 ------SIGILSSLRGVGYGTPQQP 261


  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    0.374 

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: 827,062
Number of extensions: 30358
Number of successful extensions: 108
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 108
Number of HSP's successfully gapped: 5
Length of query: 289
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 205
Effective length of database: 1,222,130
Effective search space: 250536650
Effective search space used: 250536650
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: 130 (54.7 bits)