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= 0001.0609.p
         (683 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309978|ref|YP_003774070.1| membrane transport protein [Her...  1253   0.0  

>gi|300309978|ref|YP_003774070.1| membrane transport protein
           [Herbaspirillum seropedicae SmR1]
          Length = 683

 Score = 1253 bits (3241), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 637/683 (93%), Positives = 667/683 (97%)

Query: 1   MESNQNFFRRLCRYYGFYTLGFIAFLCVLALLEREGMPRSWIGYLFLFVTIGLYAGIGVV 60
           MESN++FFRRLCRYYGFYTLGFIAFLCVLA+LEREGMPR+WIGYLFLFVTIGLYAGIGVV
Sbjct: 1   MESNKDFFRRLCRYYGFYTLGFIAFLCVLAILEREGMPRTWIGYLFLFVTIGLYAGIGVV 60

Query: 61  CRTSDVPEYYVAGRRVPPLFNGMATAADWISAATFISLAGGLYLQGFDGLAYILGWTGGY 120
           CRTSDVPEYYVAGRRVPPLFNGMATAADWISAATFISLAGGLYLQGFDGLAYILGWTGGY
Sbjct: 61  CRTSDVPEYYVAGRRVPPLFNGMATAADWISAATFISLAGGLYLQGFDGLAYILGWTGGY 120

Query: 121 CLVALLIAPYLRKFGQYTVADFLAARYPGRPGSYGANLIRILAVAATILISFTYVVAQIY 180
           CLVALLIAPYLRKFGQYT+ADFLAARYPGRPGS G N+IRILAVAATILISFTYVVAQIY
Sbjct: 121 CLVALLIAPYLRKFGQYTIADFLAARYPGRPGSQGVNVIRILAVAATILISFTYVVAQIY 180

Query: 181 GVGLITSRFTGIDFSIGIFLGLASILVCSFLGGMRAITWTQVAQYIIILLAYLIPVIWLS 240
           GVGLITSRFTGIDFSIGIFLGLASILVCSFLGGMRAITWTQVAQYIIILLAYLIPVIWLS
Sbjct: 181 GVGLITSRFTGIDFSIGIFLGLASILVCSFLGGMRAITWTQVAQYIIILLAYLIPVIWLS 240

Query: 241 AKHASVPFPPVAYGAVLPKLSALEHKLEDDPKEKEVRRIFQTRADDYAQRLKNLPQSWAD 300
           AKH +VP PPVAYGAVLPKLSA+E +LEDDPKEKE+R+IFQ RADDY ++L+NLPQSW D
Sbjct: 241 AKHTTVPVPPVAYGAVLPKLSAIEQRLEDDPKEKEIRKIFQARADDYERKLRNLPQSWVD 300

Query: 301 GRVEAQNQADQIRRDTHASLAEIKAASRALAAYPKSPEEAQRKWSEARAANLARAQPPVS 360
           GR+EA   ADQ+RRD HASLAEIKAASRAL++YPKSPEEA+RKW+EARAANLARAQPPVS
Sbjct: 301 GRLEAHTNADQVRRDNHASLAEIKAASRALSSYPKSPEEAERKWTEARAANLARAQPPVS 360

Query: 361 QTDPFPGRDKSSSDIKRNNFLALVFCLMLGTAALPHILMRYYTTPTVAGARSSVFWTLFF 420
           QT+PFPGRD+ SSDIKRNNFLALVFCLMLGTAALPHILMRYYTTPTVAGAR+SVFWTLFF
Sbjct: 361 QTEPFPGRDQESSDIKRNNFLALVFCLMLGTAALPHILMRYYTTPTVAGARTSVFWTLFF 420

Query: 421 IMLIYLTVPALAVLVKYDIYTSLVGSSYSHLPDWVYYWANMDKLNPLVSINDLNRDGVVQ 480
           IMLIYLTVPAL VLVKYDIYTSLVGSSYSHLPDWVYYWANMDKLNPLVSI DLNRDG+VQ
Sbjct: 421 IMLIYLTVPALTVLVKYDIYTSLVGSSYSHLPDWVYYWANMDKLNPLVSITDLNRDGLVQ 480

Query: 481 LGEVSMDGDIIVLAMPEIAGLPYFVSGLVAAGGLAAALSTADGLLLTISNALSHDIYYKV 540
           LGE+SMDGDIIVLAMPEIAGLPYFVSGLVAAGGLAAALSTADGLLLTISNALSHD+YYKV
Sbjct: 481 LGEISMDGDIIVLAMPEIAGLPYFVSGLVAAGGLAAALSTADGLLLTISNALSHDVYYKV 540

Query: 541 VDPSASTQKRVTISKLLLLVVALLAAYAASLKPGDILSMVGAAFSLAASTLFPALVLGVF 600
           VDPSASTQKRVTISKLLLLVVALLAAYAASLKPGDILSMVGAAFSLAASTLFPALVLGVF
Sbjct: 541 VDPSASTQKRVTISKLLLLVVALLAAYAASLKPGDILSMVGAAFSLAASTLFPALVLGVF 600

Query: 601 WKRANQPGAVAGIVCGFLMCVYYMLHTNPAFGGSAAGQWFHIAPISAGIFGVPVGMAAMV 660
           WKRANQ GA+AGI+CGFLMCVYYMLHTNP+FGGSAAGQWFHIAPISAGIFGVPVGMAAMV
Sbjct: 601 WKRANQAGAIAGILCGFLMCVYYMLHTNPSFGGSAAGQWFHIAPISAGIFGVPVGMAAMV 660

Query: 661 IVSLLTPPPDEATVALIDHIRTP 683
           IVSLLTPPPDEAT+ALIDHIRTP
Sbjct: 661 IVSLLTPPPDEATIALIDHIRTP 683


  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
   0.325    0.139    0.427 

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: 2,108,693
Number of extensions: 88678
Number of successful extensions: 412
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 414
Number of HSP's successfully gapped: 2
Length of query: 683
Length of database: 1,619,870
Length adjustment: 92
Effective length of query: 591
Effective length of database: 1,184,250
Effective search space: 699891750
Effective search space used: 699891750
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 (21.6 bits)
S2: 134 (56.2 bits)