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= 0015.0109.p
         (423 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312690|ref|YP_003776782.1| sugar ABC transporter periplasm...   849   0.0  
gi|300309781|ref|YP_003773873.1| sugar ABC transporter periplasm...   119   4e-28

>gi|300312690|ref|YP_003776782.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 433

 Score =  849 bits (2193), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 409/423 (96%), Positives = 420/423 (99%)

Query: 1   VNKICLGAACAVLGAALPVVASAQSCNVPVLKVLAQKSLGLTVMEKSLADYQQRTGTRVE 60
           VNKICLGAACAVLGAALP+VASAQSCNVPVLKVLAQKSLGLTVMEKSLADYQ+R+GTR+E
Sbjct: 11  VNKICLGAACAVLGAALPLVASAQSCNVPVLKVLAQKSLGLTVMEKSLADYQKRSGTRIE 70

Query: 61  ISYFGENDRRAKSRLDASTKAGSYQVYYVDEANVAEFASAGWIVPLLKYFPKEADYDDFL 120
           ISYFGENDRRAKSRLDA+TKAGSYQVYYVDEANVAEFASAGWIVPLLKYFPK+ADYDDFL
Sbjct: 71  ISYFGENDRRAKSRLDAATKAGSYQVYYVDEANVAEFASAGWIVPLLKYFPKDADYDDFL 130

Query: 121 PGRRAVASYKDVAYFAPLIGGSDFLFYRRDLLEKAGLPVPRTLDELVADIKKLHSPPGVY 180
           PGRRAVASYKDVAYFAPLIGGSDFLFYRRDLLEKAGLPVPRTLDELVADIKKLHSPP VY
Sbjct: 131 PGRRAVASYKDVAYFAPLIGGSDFLFYRRDLLEKAGLPVPRTLDELVADIKKLHSPPSVY 190

Query: 181 GWVARGQRGSGMNVWRWAPFMLAQGGQWTDKNNQPAFNSPAAVKATQLYAELFKYGPPGA 240
           GWVARGQRGSGMNVWRWAPFMLAQGGQWTDKNNQPAFNSPAAVKATQLYA+LFKY PPGA
Sbjct: 191 GWVARGQRGSGMNVWRWAPFMLAQGGQWTDKNNQPAFNSPAAVKATQLYADLFKYAPPGA 250

Query: 241 ATYDWSNALEAFRSGKVAFMIESTPFADWMEDSSKSSVADKVGYARPPAPLPSAAYGHGL 300
           ATYDWSNALEAFRSGKVAFMIESTPFADWMEDSSKSSVADKVGYARPPAPLPSAAYGHGL
Sbjct: 251 ATYDWSNALEAFRSGKVAFMIESTPFADWMEDSSKSSVADKVGYARPPAPLPSAAYGHGL 310

Query: 301 AISAIGAKDECTRQAAGKFIAFATGKEQEQARLRDKVFSDYNRTSTIQSDYFQKNVKPQI 360
           AISA+GAKDECTRQAAGKFIAFATGKEQEQARLR+KVFSDYNR+STIQSDYFQKNVKPQI
Sbjct: 311 AISAVGAKDECTRQAAGKFIAFATGKEQEQARLREKVFSDYNRSSTIQSDYFQKNVKPQI 370

Query: 361 LAGLKDTTPVSKLTIWPSPQWPDIGDNLGVALEEVFTGTQKDIPRALNEAAQYAQDAMEH 420
           LAGLKDTTPVSKLTIWPSPQWPDIGDNLGVALEEVFTGTQKDI RAL+EAAQYAQDAMEH
Sbjct: 371 LAGLKDTTPVSKLTIWPSPQWPDIGDNLGVALEEVFTGTQKDITRALDEAAQYAQDAMEH 430

Query: 421 ARK 423
           ARK
Sbjct: 431 ARK 433


>gi|300309781|ref|YP_003773873.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 451

 Score =  119 bits (298), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 101/324 (31%), Positives = 149/324 (45%), Gaps = 18/324 (5%)

Query: 10  CAVLGAALPVVASAQSCNVPVLKVLAQKSLGLTVMEKSLADYQQRTGTRVEISYFGENDR 69
            A L  A PV  +  S N P +  L + +      EK+  D + R  T        E+  
Sbjct: 29  AAGLAQAEPVTLNIASINNPDMIELQKLA---PAFEKANPDIKLRWVT------MEESVL 79

Query: 70  RAKSRLDASTKAGSYQVYYVDEANVAEFASAGWIVPLLKYFPKEADYDDFLPGRRAVASY 129
           R +   D +T +G + +  +       +A  GW+ P+    P + D  D +   R   S 
Sbjct: 80  RQRLTTDIATNSGQFDLMTIGAYEAPIWAKKGWLAPMTG-LPADYDEADLIKPVREGLSV 138

Query: 130 KDVAYFAPLIGGSDFLFYRRDLLEKAGLPVPR--TLDELVADIKKLHSP-PGVYGWVARG 186
               Y  P    S   +YR+DL E+  L +P+  T DE+     +LH P  GVYG   RG
Sbjct: 139 DGKLYALPFYAESSMTYYRKDLFEQKKLTMPQRPTWDEIAKLAAQLHDPAKGVYGICLRG 198

Query: 187 QRGSGMNVWRWAPFMLAQGGQWTDKNNQPAFNSPAAVKATQLYAELF-KYGPPGAATYDW 245
           + G G N+        A GG+W D+  QP  +SP   K+   Y +L  KYGPPGA++  +
Sbjct: 199 RAGWGENMAIITTMANAWGGRWFDEQWQPQLSSPEWKKSVAFYVDLMRKYGPPGASSNGF 258

Query: 246 SNALEAFRSGKVAFMIESTPFADWMEDSSKSSVADKVGYARPPAPLPSAAYG-HGLAISA 304
           +  L  F SGK    +++T  A  +     S VADK  +A  P+P+     G H L I +
Sbjct: 259 NENLVLFSSGKCGMWVDATVAAGMLYHGKDSKVADKTAFA--PSPMQVTDKGSHWLWIWS 316

Query: 305 IGA-KDECTRQAAGKFIAFATGKE 327
           +   K   ++ AA KF A+AT KE
Sbjct: 317 LAVPKSSKSQDAAKKFAAWATSKE 340


  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
   0.317    0.132    0.400 

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: 1,349,363
Number of extensions: 59624
Number of successful extensions: 159
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 157
Number of HSP's successfully gapped: 2
Length of query: 423
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 335
Effective length of database: 1,203,190
Effective search space: 403068650
Effective search space used: 403068650
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)