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= 0035.0039.p
         (468 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...   929   0.0  

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

 Score =  929 bits (2401), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 467/468 (99%), Positives = 468/468 (100%)

Query: 1   VRVSLVMSLALGLVLLLDPWALLWPGFWLSFGAVGLLLYGSVGRMQPPRAMAAAASRKHW 60
           VRVSLVMSLALGLVLLLDPWALLWPGFWLSFGAVGLLLYGSVGRMQPPRAMAAAASRKHW
Sbjct: 362 VRVSLVMSLALGLVLLLDPWALLWPGFWLSFGAVGLLLYGSVGRMQPPRAMAAAASRKHW 421

Query: 61  WPALVQRLKEASHAQYLVTLGLVPLTVLLFGQYSLIGPIANAVAIPLVSLVITPLALLGS 120
           WPALVQRLKEASHAQYLVTLGLVPLTVLLFGQYSLIGPIANAVAIPLVSLVITPLALLGS
Sbjct: 422 WPALVQRLKEASHAQYLVTLGLVPLTVLLFGQYSLIGPIANAVAIPLVSLVITPLALLGS 481

Query: 121 VLPTVLAQFVLQLPHALLAWLAGFLQGLSAMPWAVWQTPVPSWWMFALAMGGTMLLLAPR 180
           VLPTVLAQFVLQLPHALLAWLAGFLQGLSAMPWAVWQTPVPSWWMFALAMGGTMLLLAPR
Sbjct: 482 VLPTVLAQFVLQLPHALLAWLAGFLQGLSAMPWAVWQTPVPSWWMFALAMGGTMLLLAPR 541

Query: 181 GWPVRWLGWFGWLPLLLNAPVAPAEGSMRVTAFDVGQGMAVLVETPTHRLLYDTGPYYTP 240
           GWPVRWLGWFGWLPLLLNAP+APAEGSMRVTAFDVGQGMAVLVETPTHRLLYDTGPYYTP
Sbjct: 542 GWPVRWLGWFGWLPLLLNAPMAPAEGSMRVTAFDVGQGMAVLVETPTHRLLYDTGPYYTP 601

Query: 241 ESDGATRVILPYLRARGIDHLDRVVISHNDNDHSGGALSLFGSLPVDSVYSSLAEDSPIL 300
           ESDGATRVILPYLRARGIDHLDRVVISHNDNDHSGGALSLFGSLPVDSVYSSLAEDSPIL
Sbjct: 602 ESDGATRVILPYLRARGIDHLDRVVISHNDNDHSGGALSLFGSLPVDSVYSSLAEDSPIL 661

Query: 301 RAAPLHTRCQAGQTWNWDGIGFSMLHPTAASYDSDKWRPNARSCVLKVQIGRQSVLLAGD 360
           RAAPLHTRCQAGQTWNWDGIGFSMLHPTAASYDSDKWRPNARSCVLKVQIGRQSVLLAGD
Sbjct: 662 RAAPLHTRCQAGQTWNWDGIGFSMLHPTAASYDSDKWRPNARSCVLKVQIGRQSVLLAGD 721

Query: 361 IEAVQEDELVNGPMGERLPATVLLAPHHGSATSSTEPFLRAVRPELAIFQVGYRNRFRHP 420
           IEAVQEDELVNGPMGERLPATVLLAPHHGSATSSTEPFLRAVRPELAIFQVGYRNRFRHP
Sbjct: 722 IEAVQEDELVNGPMGERLPATVLLAPHHGSATSSTEPFLRAVRPELAIFQVGYRNRFRHP 781

Query: 421 HPDVDARYQRLGIRRLRTDESGAVTMVLGDQLQVEQYRQQRRRYWQGH 468
           HPDVDARYQRLGIRRLRTDESGAVTMVLGDQLQVEQYRQQRRRYWQGH
Sbjct: 782 HPDVDARYQRLGIRRLRTDESGAVTMVLGDQLQVEQYRQQRRRYWQGH 829


  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    0.138    0.447 

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: 1,316,994
Number of extensions: 53011
Number of successful extensions: 221
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 221
Number of HSP's successfully gapped: 1
Length of query: 468
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 379
Effective length of database: 1,198,455
Effective search space: 454214445
Effective search space used: 454214445
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: 132 (55.5 bits)