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= 0001.0284.p
         (524 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309653|ref|YP_003773745.1| transmembrane protein [Herbaspi...   942   0.0  

>gi|300309653|ref|YP_003773745.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 529

 Score =  942 bits (2435), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 463/528 (87%), Positives = 492/528 (93%), Gaps = 5/528 (0%)

Query: 1   VSQAVTRSSAPVSPPAS-----FLRRHWRGDYSLGRSYWLHTVLLTSLVPALAISVLARL 55
           +S+ VTR S    P A+     FLRRHWRGDYSL RSYWLHTVLLTSL PALAI +LARL
Sbjct: 1   MSEVVTRPSVSAVPAAASRRPGFLRRHWRGDYSLARSYWLHTVLLTSLTPALAIPLLARL 60

Query: 56  TNDMPARYGMAGVLGIAGFSYLAWTWGVCGCWRSASKHVGRGGRRWAEVVVKFLILCGVI 115
           TNDMPARYGM GVL IA FSYLAWTWGVCGCWRSAS+HV RGGRRWAE+ VKFLILCGVI
Sbjct: 61  TNDMPARYGMGGVLFIAAFSYLAWTWGVCGCWRSASRHVARGGRRWAELAVKFLILCGVI 120

Query: 116 SMATSTWRAAHSLREQFDIALGKQLGPPVVYQVRVDGKSVLLQGGMNDGAAAGLDAILQQ 175
           SMATSTWRAAHSLREQF+IALGKQLGPPVVYQ+RVDGKSVLLQGGMNDGAA GL  IL Q
Sbjct: 121 SMATSTWRAAHSLREQFEIALGKQLGPPVVYQLRVDGKSVLLQGGMNDGAADGLARILDQ 180

Query: 176 NPSVTTVVLYSAGGWVREGKLVGEVIRRRHLNTYVEQECSSSCTLAFLAGRDRAMDPRAH 235
           +PSV TVVLYSAGGWVREGKLVGEVIRRR L TYVEQECSSSCTLAFLAGRDRAMDPRAH
Sbjct: 181 HPSVRTVVLYSAGGWVREGKLVGEVIRRRGLATYVEQECSSSCTLAFLAGRDRAMDPRAH 240

Query: 236 IGFHTLYTVGGDDRINKSFDRKLTFDTYGKLGLPHEFIERIADTPAAQSWYPELGQLLQA 295
           IGFHTLYTVGGDDRINKSFDRKLTFDTYGKLGLP EFIERIADTPA+ SWYPELGQLLQA
Sbjct: 241 IGFHTLYTVGGDDRINKSFDRKLTFDTYGKLGLPREFIERIADTPASSSWYPELGQLLQA 300

Query: 296 GVLTRLAPGGETAQIATIATSRDILEAEFKKGALFDIMARYHPADFARTIDLAWAKVQAH 355
           GVLTRLAPGGETAQ+ATIATSRDILEAEFKKGALFDIMARYHP +FA TIDLAWA+VQAH
Sbjct: 301 GVLTRLAPGGETAQLATIATSRDILEAEFKKGALFDIMARYHPKEFAHTIDLAWAQVQAH 360

Query: 356 ASDAEILAVGREQIGLLSRRLLPIASDQSLAEFQQLLLDEALALRGISAAACTELIYPRS 415
           ASDA+ILAVGREQIG+LSRRLLPIASD SLAEFQQLLLD+A+ALRGISAAACTELIYPRS
Sbjct: 361 ASDAQILAVGREQIGILSRRLLPIASDASLAEFQQLLLDQAVALRGISAAACTELIYPRS 420

Query: 416 RADAAAGREAPQSVLPQEFANREQQMTQRLLRDADPANAGRYSLAERTRVIRKALAPLTQ 475
           R DAAAGREAPQ+VLP EFANREQ+MTQ LLRDADP NAGRY+LAERTRVIR+ALAPLTQ
Sbjct: 421 REDAAAGREAPQAVLPPEFANREQRMTQHLLRDADPVNAGRYTLAERTRVIRQALAPLTQ 480

Query: 476 EQLKLLSSPLRRQADPDATCDASIAYLQAVNQLPPEDKRMALRVLYSR 523
           +QLKLLSSPLRRQADP+ATC+ASIAYL+AVNQLPP+++R+ALRVLYSR
Sbjct: 481 DQLKLLSSPLRRQADPEATCEASIAYLRAVNQLPPQERRVALRVLYSR 528


  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
   0.321    0.134    0.403 

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: 1,748,523
Number of extensions: 78130
Number of successful extensions: 254
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 254
Number of HSP's successfully gapped: 1
Length of query: 524
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 434
Effective length of database: 1,193,720
Effective search space: 518074480
Effective search space used: 518074480
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 133 (55.8 bits)