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= 0001.0514.p
         (627 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309868|ref|YP_003773960.1| membrane transport protein [Her...  1026   0.0  
gi|300309967|ref|YP_003774059.1| permease [Herbaspirillum serope...    59   1e-09

>gi|300309868|ref|YP_003773960.1| membrane transport protein
           [Herbaspirillum seropedicae SmR1]
          Length = 626

 Score = 1026 bits (2654), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 536/623 (86%), Positives = 572/623 (91%), Gaps = 2/623 (0%)

Query: 5   KTSAFSRLSSATLLGAAVVLGMLYFGREILAPLAVAGIASLIILPLVRKLDALGLNRAAA 64
           K SA SR +S TLLGAAV LGMLYFGREILAPLAVAGIASLIILPLVRKLDALGLNRA A
Sbjct: 6   KASALSRFNSTTLLGAAVALGMLYFGREILAPLAVAGIASLIILPLVRKLDALGLNRAGA 65

Query: 65  AMVSVLLVGGCLVALAVVLTFQLVSVTSDLPQYRDAIQEKVESVRAMTERPFARLEAQLT 124
           A+VSVLLVG CLVALAVVL FQLVSVTSDLPQYR+AIQ+KVESVRAMTERPFARLEA+L+
Sbjct: 66  AIVSVLLVGSCLVALAVVLAFQLVSVTSDLPQYREAIQDKVESVRAMTERPFARLEAELS 125

Query: 125 AVIPQPMAEPTRNGKKNSRAASAAAAAAATPEADTRMSVRGALRRLFALAWGPIGQAGIV 184
           AVIPQP+ E TR+GKK S AA+ A A AA   ADTRMSVRGA++RLFALAWGPIGQAGIV
Sbjct: 126 AVIPQPVPETTRSGKKASHAAATAPAPAAE--ADTRMSVRGAIKRLFALAWGPIGQAGIV 183

Query: 185 LVLLVFILLEQESLRERLIRLAGLTEMSRTMQALGDAAEGVSRFFFSQFVVNLVFGLTMG 244
           LVLLVFILLEQESLRERLIRLAGLTEMSRTMQALGDAAEGVSRFFFSQF+VNL FGL MG
Sbjct: 184 LVLLVFILLEQESLRERLIRLAGLTEMSRTMQALGDAAEGVSRFFFSQFLVNLAFGLIMG 243

Query: 245 IVLAAGGVPHAVLWGTLAGVLRFVPYLGALASGLMISVFIAAIDPGWWLALSFLAFYVGL 304
            VLAAGGVPHAVLWGTLAGVLRFVPYLGALASG+MI++FIAAIDPGWWLALSFLAFY  L
Sbjct: 244 AVLAAGGVPHAVLWGTLAGVLRFVPYLGALASGVMIAIFIAAIDPGWWLALSFLAFYGCL 303

Query: 305 EVIVSNFVEPRIYGHSSGLSPLAVIVSALFWGSLWGPIGLLLSTPLTLCLVVAGRHVAAL 364
           EVIV+NF+EPRIYGHSSGLSPLAVIVSALFWGSLWGPIGLLLSTPLTLCLVVAGRHVAAL
Sbjct: 304 EVIVANFIEPRIYGHSSGLSPLAVIVSALFWGSLWGPIGLLLSTPLTLCLVVAGRHVAAL 363

Query: 365 EPITILLGEAPDMSHAERFYQRALAGESDAIIRHARAHLQKQSFAKYCDQILLPGLALAA 424
           EPI+ILLGEAPDMSHAERFYQRALAGESDAIIR AR HLQKQSFAKYCDQ+LLPGLALAA
Sbjct: 364 EPISILLGEAPDMSHAERFYQRALAGESDAIIRDARRHLQKQSFAKYCDQVLLPGLALAA 423

Query: 425 LDLRHGRIEGAQQERLLRSISQLTEVLTQSPGTPRSLRRRREVPLLNSSIGAHLRQLRLA 484
           +D R GRIEG QQ RLL SISQLTE L Q+PGTP+SLRRRREVPLLNSS+GAHLR+LR A
Sbjct: 424 VDFREGRIEGPQQNRLLSSISQLTETLMQTPGTPKSLRRRREVPLLNSSVGAHLRELRQA 483

Query: 485 RLGRWQGSLDVPQGSVVLCAGLSDERDDLLSELLVHSLRVSGIDARGITLDQPEAEQPDN 544
           RLGRWQGSLDVP GSVVLCAGL  ERDDLL ELLVH+LR++GIDAR ITLD+PE EQPD+
Sbjct: 484 RLGRWQGSLDVPVGSVVLCAGLDHERDDLLCELLVHALRMTGIDARSITLDRPEDEQPDS 543

Query: 545 SKAELVSIVFLVYPMREHLVTWLEGVRLLRENLPQALLVTIRPSFFNEEVEAATVKEQVD 604
           SKAELVSIVFLVYP+RE L  W E VR LR  +PQALL TIRPSFF+EEVEA  VK+QVD
Sbjct: 544 SKAELVSIVFLVYPLRESLARWQEQVRTLRAAIPQALLATIRPSFFSEEVEAGVVKDQVD 603

Query: 605 MVLSSFEEGLAFASTHMQPAIKA 627
           MVLSSFEEGLAFA+THM+P +KA
Sbjct: 604 MVLSSFEEGLAFAATHMRPELKA 626


>gi|300309967|ref|YP_003774059.1| permease [Herbaspirillum
           seropedicae SmR1]
          Length = 360

 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 47/150 (31%), Positives = 79/150 (52%), Gaps = 4/150 (2%)

Query: 213 RTMQALGDAAEGVSRFFFSQFVVNLVFGLTMGIVLAAGGVPHAVLWGTLAGVLRFVPYLG 272
            TM A  D   G  ++   Q +V LV  +   + L A G   A+  G L G+L F+PY+G
Sbjct: 202 NTMAAEVDGLLG--QYLRGQLLVMLVLAVYYSVALTAAGFDSALPVGVLTGLLVFIPYVG 259

Query: 273 ALASGLMISVFIAAIDPGWWLALSFLAFYVGLEVIVSNFV-EPRIYGHSSGLSPLAVIVS 331
               GL++++  A +     + L ++A   G+  ++ +F+  P++ G   GL PL VI +
Sbjct: 260 -FGLGLVLAILAAILQFDGAIGLLWVALIYGVGQVLESFILTPKLVGERIGLHPLVVIFA 318

Query: 332 ALFWGSLWGPIGLLLSTPLTLCLVVAGRHV 361
            L +G L+G +G+LL+ P +  + V   HV
Sbjct: 319 LLAFGQLFGFVGVLLALPASAIVSVIALHV 348


  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
   0.323    0.137    0.392 

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: 1,686,267
Number of extensions: 64599
Number of successful extensions: 303
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 301
Number of HSP's successfully gapped: 3
Length of query: 627
Length of database: 1,619,870
Length adjustment: 91
Effective length of query: 536
Effective length of database: 1,188,985
Effective search space: 637295960
Effective search space used: 637295960
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 133 (55.8 bits)