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= 0001.3828.p
         (424 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313218|ref|YP_003777310.1| transport protein [Herbaspirill...   605   e-174

>gi|300313218|ref|YP_003777310.1| transport protein [Herbaspirillum
           seropedicae SmR1]
          Length = 412

 Score =  605 bits (1561), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 321/412 (77%), Positives = 352/412 (85%), Gaps = 3/412 (0%)

Query: 9   HTLMRSPMSSHQSTAPHPRHGQAWKVCLSGMVALSVAMGIGRFAFTPLLPMMLHEGSLSL 68
           H    +P SS   + P  R+  +WKVCL+GMVALSVAMGIGRFAFTPLLP+MLHEGSL+L
Sbjct: 2   HQSSTAPASSLPRS-PAQRNRLSWKVCLAGMVALSVAMGIGRFAFTPLLPLMLHEGSLNL 60

Query: 69  QMGGWLATANYLGYFLGAMLCALYRSRRGVALLRAGLVATILLTLGMGVLHQDWAWLWMR 128
           QMGGWLATANYLGYF+GAM CA++RS+RGV +LR GLVATILLTLGMG+L  +W WL MR
Sbjct: 61  QMGGWLATANYLGYFVGAMACAVHRSKRGVRMLRIGLVATILLTLGMGLLQWNWLWLLMR 120

Query: 129 LLSGVASAYVFVYTAGWCLQQLTQLGRPELGGVIFCGPGLGIALTGLLSGPMIAAGWLAA 188
            LSGVASAYVFVYTAGWCL QLTQL RPELGGVIFCGPGLGIALTGLL+GPMI+AGW+AA
Sbjct: 121 FLSGVASAYVFVYTAGWCLHQLTQLQRPELGGVIFCGPGLGIALTGLLTGPMISAGWVAA 180

Query: 189 GGWIAFGVIALALSVVVWPAFSFDAGAQLKVHEHQDHTSQMQQPETPQHKREVLIQVIAY 248
           GGWIA+G+IAL L+ +VW  F FDAG            +  Q  E+P+ KREV +QVIAY
Sbjct: 181 GGWIAYGIIALGLTALVWQTFRFDAGQGQASAATTTTDASAQ--ESPRQKREVTVQVIAY 238

Query: 249 GIAGFGYIITATFLPVIARRALPGSAWPDYFWPIFGLSVAVGAFSATRLSVQGDQRLLLI 308
           GIAGFGYIITATFLPVIAR+ALPGSAWPDYFWPIFGLSVA GAFSATR SV  DQRLLL 
Sbjct: 239 GIAGFGYIITATFLPVIARQALPGSAWPDYFWPIFGLSVAAGAFSATRFSVHTDQRLLLT 298

Query: 309 GAYLMQALGVLLSIFWPNALGFALSCLLLGLPFTAITLFGMREARRLRGEQASSLMALMT 368
            AYLMQA GVLLSI +PNA GFALSCLLLGLPFTAITLFGMREARRLR EQASSLMALMT
Sbjct: 299 AAYLMQAAGVLLSILFPNAWGFALSCLLLGLPFTAITLFGMREARRLRREQASSLMALMT 358

Query: 369 AAYGIGQIAGPPLATALVHGSGSFTPSLCVAAVALLIGAALYYHLTFSHRLP 420
           AAYGIGQIAGPPLAT+LVH SGSFTPSLCVAA+ L+IGAALYY LT +HRLP
Sbjct: 359 AAYGIGQIAGPPLATSLVHASGSFTPSLCVAAITLIIGAALYYRLTRTHRLP 410


  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
   0.327    0.139    0.445 

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: 1,260,568
Number of extensions: 50788
Number of successful extensions: 297
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 292
Number of HSP's successfully gapped: 2
Length of query: 424
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 336
Effective length of database: 1,203,190
Effective search space: 404271840
Effective search space used: 404271840
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 132 (55.5 bits)