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= 0001.0597.p
         (360 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309967|ref|YP_003774059.1| permease [Herbaspirillum serope...   608   e-175
gi|300312358|ref|YP_003776450.1| hypothetical protein Hsero_3054...    76   5e-15

>gi|300309967|ref|YP_003774059.1| permease [Herbaspirillum
           seropedicae SmR1]
          Length = 360

 Score =  608 bits (1567), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 336/360 (93%), Positives = 350/360 (97%)

Query: 1   MPFSLSEEQKQNLAWLIVGILLLSLLVALGPMLSPFVAAGIIGYALNPGVDWIASRRIGP 60
           MPFSLSEEQKQNL WLIVG LLL+LL+ALGPMLSPFVAAGIIGYALNPGVDWIASRR+GP
Sbjct: 1   MPFSLSEEQKQNLVWLIVGFLLLALLIALGPMLSPFVAAGIIGYALNPGVDWIASRRLGP 60

Query: 61  VRIPRFVGVTVMVLLLILAALALVLIVVPLVLRQIPLLQAQVPPLLDKLNAFLSPRLHQL 120
           VR+PRFV VT+MVLLLILA LALVLIVVPLVLRQIPLLQAQVPPLLDKLNAF+SPRLHQL
Sbjct: 61  VRVPRFVAVTIMVLLLILAGLALVLIVVPLVLRQIPLLQAQVPPLLDKLNAFVSPRLHQL 120

Query: 121 GIDVRLDLAGIKALLTQQISTSGDELWSSLLASAKVGGTALLAWLANLLFVPMVLFYLLQ 180
           GIDVRLDLAGIK+LLTQQISTS DE+W+S+LASAKVGGTALL WLANLLFVPMVLFYLLQ
Sbjct: 121 GIDVRLDLAGIKSLLTQQISTSSDEVWTSVLASAKVGGTALLTWLANLLFVPMVLFYLLQ 180

Query: 181 DWHPFLKRMQILIPRRWAARVNTMATEVDGLLGQYLRGQLLVMLVLAVYYSVALTVAGFD 240
           DWH F+KRMQILIPRRWA R+NTMA EVDGLLGQYLRGQLLVMLVLAVYYSVALT AGFD
Sbjct: 181 DWHQFIKRMQILIPRRWAGRINTMAAEVDGLLGQYLRGQLLVMLVLAVYYSVALTAAGFD 240

Query: 241 SALPVGVLTGLLVFIPYVGFGLGLVLAVLAAILQFDGAVGLLWVALIYGVGQVLESFILT 300
           SALPVGVLTGLLVFIPYVGFGLGLVLA+LAAILQFDGA+GLLWVALIYGVGQVLESFILT
Sbjct: 241 SALPVGVLTGLLVFIPYVGFGLGLVLAILAAILQFDGAIGLLWVALIYGVGQVLESFILT 300

Query: 301 PKLVGERIGLHPLVVIFALLAFGQLFGFVGVLLALPASAIVSVIALHVRREYLASNFYNR 360
           PKLVGERIGLHPLVVIFALLAFGQLFGFVGVLLALPASAIVSVIALHVRREYLASNFYNR
Sbjct: 301 PKLVGERIGLHPLVVIFALLAFGQLFGFVGVLLALPASAIVSVIALHVRREYLASNFYNR 360


>gi|300312358|ref|YP_003776450.1| hypothetical protein Hsero_3054
           [Herbaspirillum seropedicae SmR1]
          Length = 374

 Score = 75.9 bits (185), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 87/317 (27%), Positives = 149/317 (47%), Gaps = 26/317 (8%)

Query: 37  VAAGIIGYALNPGVDWIASRRIGPVRIPRFVGVTVMVLLLILAALALVLIVVPLVLRQIP 96
           V A    Y + P V+ I   R+ P R+PR V +  +V +L +A +A V  +    +++  
Sbjct: 36  VFAVFFSYLVYPLVELI--ERVRPPRVPRTVSIA-LVFVLAIAIVATVATIFGARIQEEA 92

Query: 97  L-LQAQVPPLLDKLNAFLSPRLHQLGIDVRLDLAGIKALLTQQISTSGDELWSSLLASAK 155
           L L  Q+P LL   +A     L      +R   A I   +  Q++   D+     +  AK
Sbjct: 93  LRLSEQLPALLRSNDAVSRLPLPGFAEPLR---ARILGFVRDQLAAGTDQA----MPLAK 145

Query: 156 VGGTALLAWLANLLF---VPMVLFYLLQDWHPFLKRMQILIPRRWAARVNT-----MATE 207
             G  ++   +NL++   VP++ F L+++     + M       W +R N      + T+
Sbjct: 146 QFGVGVMHAASNLIYLVLVPVISFLLIKEAPAMREEML-----SWMSRANRKLWDGIVTD 200

Query: 208 VDGLLGQYLRGQLLVMLVLAVYYSVALTVAGFDSALPVGVLTGLLVFIPYVGFGLGLVLA 267
           +D LL +Y+R  L + +   V YS+A ++ G   A+ +  L  +L FIP+ G       A
Sbjct: 201 LDVLLSRYVRALLFLSVATFVAYSIAFSLMGVPYAMLLAGLAAVLEFIPFAG--PLAASA 258

Query: 268 VLAAILQFDGAVGLLWVALIYGVGQVLESFILTPKLVGERIGLHPLVVIFALLAFGQLFG 327
               +  F     LLW+       +V + ++L P L+ E + + PL+VI  LLA  QL G
Sbjct: 259 AALVVAGFSAYDHLLWLVGFIVAYRVFQDYVLNPYLMSEGVEVSPLMVILGLLAGDQLGG 318

Query: 328 FVGVLLALPASAIVSVI 344
             G+ L++P  A + +I
Sbjct: 319 VAGIFLSVPVMAALKII 335


  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
   0.330    0.146    0.435 

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: 832,934
Number of extensions: 26343
Number of successful extensions: 174
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 171
Number of HSP's successfully gapped: 3
Length of query: 360
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 274
Effective length of database: 1,212,660
Effective search space: 332268840
Effective search space used: 332268840
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)