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= 0001.2780.p
         (829 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...  1416   0.0  

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

 Score = 1416 bits (3666), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 714/829 (86%), Positives = 768/829 (92%)

Query: 1   MRALIIGFAIGVGLLQVQGQLPGLEWYGVGLVLAALLAFTAWKFWQPFLRVPVLLTCGAW 60
           MR+LIIGFAIG+GLLQ+Q QLPGLEWYGVGLVLAALL FTAWKFWQPFLRVP+LLTCGAW
Sbjct: 1   MRSLIIGFAIGIGLLQMQAQLPGLEWYGVGLVLAALLGFTAWKFWQPFLRVPLLLTCGAW 60

Query: 61  LGFLWAASFALYYLDQELPSAWEGRDITVIGTVADLPVHNDQGVRFRFDVEQVVLQSGIK 120
           LGFLWAA FA YYLDQELP+AWEG DITVIGTVADLP H+ QG+R+RFDVEQVVLQ G+K
Sbjct: 61  LGFLWAAGFAAYYLDQELPAAWEGHDITVIGTVADLPDHSAQGLRWRFDVEQVVLQGGVK 120

Query: 121 PPVPPRLALSWYGNQRYQQPTEDGEQASPAPLAVPDLRPGERWRLQVRLKRPHGNANPDG 180
           PPVPPRLALSWYGNQRYQ P EDGEQA+PA LA+PD+RPGERWRL+VRLKRPHGNANP G
Sbjct: 121 PPVPPRLALSWYGNQRYQSPAEDGEQAAPARLALPDMRPGERWRLKVRLKRPHGNANPGG 180

Query: 181 FDYELSLLQDDVRATGYVVGRPAAASAPATALNRRIDTFVWTPSHVIDSARGWLRDRIYT 240
           FDYEL LLQDDVRATGYVVG PAA  APATA+NRR++ FVWTPSH ID ARGWLRD IY 
Sbjct: 181 FDYELWLLQDDVRATGYVVGAPAAPGAPATAINRRLEAFVWTPSHAIDYARGWLRDGIYA 240

Query: 241 ALPDAPYAGVIAALVMGDQRGIRQDDWTVFNRTGIGHLMAISGLHITMLAALCGGLAGWL 300
           ALP APYAGVIAALV+GDQRGI Q DW++FNRTGIGHLMAISGLHITMLAAL GGLA WL
Sbjct: 241 ALPGAPYAGVIAALVIGDQRGISQADWSIFNRTGIGHLMAISGLHITMLAALFGGLASWL 300

Query: 301 WRRSFFTGAQLPLRLPAQKVAVIAGMVTALLYVLLAGFGVPAQRTLYMLIVVGIAFWRGR 360
           WRRSFFTGAQLPLRLPAQKVAV+AGM  ALLYVLL+GFGVPAQRTLYMLIVVGIAFWRGR
Sbjct: 301 WRRSFFTGAQLPLRLPAQKVAVLAGMAAALLYVLLSGFGVPAQRTLYMLIVVGIAFWRGR 360

Query: 361 IVRVSVVQCLALALVLLLDPWAVLWPGFWLSFGAVALLLYGSVGRMQPPRAMAAAAARKH 420
           IVRVS+V  LAL LVLLLDPWA+LWPGFWLSFGAV LLLYGSVGRMQPPRAMAAAA+RKH
Sbjct: 361 IVRVSLVMSLALGLVLLLDPWALLWPGFWLSFGAVGLLLYGSVGRMQPPRAMAAAASRKH 420

Query: 421 WWPALLQRIKEASHAQYVVTLGLVPLTMLLFGQYSLVSPIANAIAIPLVSLVITPLALVG 480
           WWPAL+QR+KEASHAQY+VTLGLVPLT+LLFGQYSL+ PIANA+AIPLVSLVITPLAL+G
Sbjct: 421 WWPALVQRLKEASHAQYLVTLGLVPLTVLLFGQYSLIGPIANAVAIPLVSLVITPLALLG 480

Query: 481 SILPTVLAQFVLQVPHQLLSWLADFLQTLNAMPWAVWQTPLPSWWMFALALGGTLLVLAP 540
           S+LPTVLAQFVLQ+PH LL+WLA FLQ L+AMPWAVWQTP+PSWWMFALA+GGT+L+LAP
Sbjct: 481 SVLPTVLAQFVLQLPHALLAWLAGFLQGLSAMPWAVWQTPVPSWWMFALAMGGTMLLLAP 540

Query: 541 RGWPVRWLGLFGWLPLLLNTPLGPAEGTMRVTAFDVGQGMAVLVETPGHRLLYDTGPYYT 600
           RGWPVRWLG FGWLPLLLN P+ PAEG+MRVTAFDVGQGMAVLVETP HRLLYDTGPYYT
Sbjct: 541 RGWPVRWLGWFGWLPLLLNAPMAPAEGSMRVTAFDVGQGMAVLVETPTHRLLYDTGPYYT 600

Query: 601 AESDGATRVILPYLRAHGIDHLDRVVISHNDNDHSGGALSLFKSLSVDSVYSSLSPDSRI 660
            ESDGATRVILPYLRA GIDHLDRVVISHNDNDHSGGALSLF SL VDSVYSSL+ DS I
Sbjct: 601 PESDGATRVILPYLRARGIDHLDRVVISHNDNDHSGGALSLFGSLPVDSVYSSLAEDSPI 660

Query: 661 LRSAPVNTRCQAGQTWNWDGIGFTVLHPAAASYDSDKWRPNARSCVLKVQIGRQSVLLTG 720
           LR+AP++TRCQAGQTWNWDGIGF++LHP AASYDSDKWRPNARSCVLKVQIGRQSVLL G
Sbjct: 661 LRAAPLHTRCQAGQTWNWDGIGFSMLHPTAASYDSDKWRPNARSCVLKVQIGRQSVLLAG 720

Query: 721 DIEATQEDELVNGPLADRLPSTVLLAPHHGSGTSSTEPFLRAVRPELVVFQVGYRNRFNH 780
           DIEA QEDELVNGP+ +RLP+TVLLAPHHGS TSSTEPFLRAVRPEL +FQVGYRNRF H
Sbjct: 721 DIEAVQEDELVNGPMGERLPATVLLAPHHGSATSSTEPFLRAVRPELAIFQVGYRNRFRH 780

Query: 781 PKPEVYERYGRLGIRRLRTDESGALTMTLGDQLQVEQYRKQHARYWYGH 829
           P P+V  RY RLGIRRLRTDESGA+TM LGDQLQVEQYR+Q  RYW GH
Sbjct: 781 PHPDVDARYQRLGIRRLRTDESGAVTMVLGDQLQVEQYRQQRRRYWQGH 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
   0.324    0.139    0.451 

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: 2,495,940
Number of extensions: 102241
Number of successful extensions: 505
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 505
Number of HSP's successfully gapped: 1
Length of query: 829
Length of database: 1,619,870
Length adjustment: 93
Effective length of query: 736
Effective length of database: 1,179,515
Effective search space: 868123040
Effective search space used: 868123040
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 135 (56.6 bits)