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= 0164.0002.p
         (388 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312085|ref|YP_003776177.1| transporter DNA uptake transmem...   329   3e-91

>gi|300312085|ref|YP_003776177.1| transporter DNA uptake
           transmembrane protein [Herbaspirillum seropedicae SmR1]
          Length = 829

 Score =  329 bits (843), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 179/294 (60%), Positives = 228/294 (77%), Gaps = 7/294 (2%)

Query: 1   VIGDQRAIEQSDWSIFNRTGVGHLVAISGLHITLISGLFGAFFGLLWRCSFVTRAQLPLL 60
           VIGDQR I Q+DWSIFNRTG+GHL+AISGLHIT+++ LFG     LWR SF T AQLPL 
Sbjct: 255 VIGDQRGISQADWSIFNRTGIGHLMAISGLHITMLAALFGGLASWLWRRSFFTGAQLPLR 314

Query: 61  MPAPKVAVLAGLLAALVYVLLAGFGVPAQRTLYMLCVVGLAYWTGRLTHISYVMSLALAV 120
           +PA KVAVLAG+ AAL+YVLL+GFGVPAQRTLYML VVG+A+W GR+  +S VMSLAL +
Sbjct: 315 LPAQKVAVLAGMAAALLYVLLSGFGVPAQRTLYMLIVVGIAFWRGRIVRVSLVMSLALGL 374

Query: 121 VLLFDPWALLWPGFWLSFGAVAIILYASSGRIGADMPAEPQVLTPVQRHRKPSYMAKSWR 180
           VLL DPWALLWPGFWLSFGAV ++LY S GR+    P         ++H  P+ + +   
Sbjct: 375 VLLLDPWALLWPGFWLSFGAVGLLLYGSVGRM---QPPRAMAAAASRKHWWPALVQR--- 428

Query: 181 SLRAGAYTQYVVTLGLLPLTMVLFGQYSLLSPLANAAAIPLITIVIAPLSLLGSILPPPL 240
            L+  ++ QY+VTLGL+PLT++LFGQYSL+ P+ANA AIPL+++VI PL+LLGS+LP  L
Sbjct: 429 -LKEASHAQYLVTLGLVPLTVLLFGQYSLIGPIANAVAIPLVSLVITPLALLGSVLPTVL 487

Query: 241 SQWLLLTAHAVLEWLVQLLEWLAGQPFAVWQAPLPPLWIFAVALGGTLLLLAPR 294
           +Q++L   HA+L WL   L+ L+  P+AVWQ P+P  W+FA+A+GGT+LLLAPR
Sbjct: 488 AQFVLQLPHALLAWLAGFLQGLSAMPWAVWQTPVPSWWMFALAMGGTMLLLAPR 541



 Score =  100 bits (248), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 54/74 (72%), Positives = 63/74 (85%)

Query: 302 LLLLGFGVPAQRTLYMLCVVGLAYWTGRLTHISYVMSLALAVVLLFDPWALLWPGFWLSF 361
           +LL GFGVPAQRTLYML VVG+A+W GR+  +S VMSLAL +VLL DPWALLWPGFWLSF
Sbjct: 333 VLLSGFGVPAQRTLYMLIVVGIAFWRGRIVRVSLVMSLALGLVLLLDPWALLWPGFWLSF 392

Query: 362 GAVAIILYASSGRI 375
           GAV ++LY S GR+
Sbjct: 393 GAVGLLLYGSVGRM 406


  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
   0.329    0.143    0.465 

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: 1,056,688
Number of extensions: 39014
Number of successful extensions: 168
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 167
Number of HSP's successfully gapped: 2
Length of query: 388
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 301
Effective length of database: 1,207,925
Effective search space: 363585425
Effective search space used: 363585425
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)