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= 0001.2807.p
         (323 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312112|ref|YP_003776204.1| transmembrane permease [Herbasp...   384   e-108
gi|300312113|ref|YP_003776205.1| hypothetical protein Hsero_2802...    58   9e-10

>gi|300312112|ref|YP_003776204.1| transmembrane permease
           [Herbaspirillum seropedicae SmR1]
          Length = 254

 Score =  384 bits (987), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 215/254 (84%), Positives = 231/254 (90%)

Query: 70  MTASLFFSGIVNFLLGAALGAMGGLFGIGGGLIAIPVLGYLYGMDQQLAQGTALVMIVPN 129
           MTASLFFSG+VNFLLG  LGAMGGLFGIGGGLIAIPVLGYLYGMDQQLAQGT+LVMIVPN
Sbjct: 1   MTASLFFSGVVNFLLGGLLGAMGGLFGIGGGLIAIPVLGYLYGMDQQLAQGTSLVMIVPN 60

Query: 130 VVIAFWRYKQRNRIEWRTAAMMCVPAVFTTYAAARVATAMNARSLHVCFAAFMGLLALYY 189
           VVIAFWRYKQRN+IEW TAAMMC PAV  TY +AR+ATA++ARSLH CFA FM +LALYY
Sbjct: 61  VVIAFWRYKQRNKIEWSTAAMMCAPAVVATYFSARLATAIDARSLHFCFAVFMAVLALYY 120

Query: 190 LWTLLRRKRSVQSSLLLGPAYIPLVGVAAGASAGFFSVGGAIVAVPLLTAFFGATQTAAQ 249
           LWTLLRR  +V   ++LG  +IP VG++AGASAGFFSVGGAIVAVPLLTAFFG TQTAAQ
Sbjct: 121 LWTLLRRSPAVVRPVVLGRRWIPFVGLSAGASAGFFSVGGAIVAVPLLTAFFGMTQTAAQ 180

Query: 250 GLGLAMVTPGALVALWTYAQAGHVDWAVGLPMALGGVLSISWGVALAHHLPERRLRILFC 309
           GLGLAMVTPG LVALWTYA AGHVDWAVG+PMALGGVLSISWGVALAHHLPERRLRILFC
Sbjct: 181 GLGLAMVTPGTLVALWTYAHAGHVDWAVGIPMALGGVLSISWGVALAHHLPERRLRILFC 240

Query: 310 AALLALSVWMMMGG 323
            ALL LSVWMM+GG
Sbjct: 241 GALLLLSVWMMVGG 254


>gi|300312113|ref|YP_003776205.1| hypothetical protein Hsero_2802
          [Herbaspirillum seropedicae SmR1]
          Length = 52

 Score = 58.2 bits (139), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 27/34 (79%), Positives = 29/34 (85%)

Query: 16 GLLLHHHVDGQRNEGDHAHLQRKDDDAAHVSLLF 49
          GL LHHHVD QR+EGD AH QR+ DDAAHVSLLF
Sbjct: 19 GLFLHHHVDRQRDEGDDAHFQREHDDAAHVSLLF 52


  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
   0.328    0.139    0.439 

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: 740,651
Number of extensions: 24510
Number of successful extensions: 164
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 162
Number of HSP's successfully gapped: 3
Length of query: 323
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 238
Effective length of database: 1,217,395
Effective search space: 289740010
Effective search space used: 289740010
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 (21.8 bits)
S2: 131 (55.1 bits)