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= 0004.0111.p
         (175 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312390|ref|YP_003776482.1| lipoprotein [Herbaspirillum ser...   326   6e-91
gi|300311082|ref|YP_003775174.1| transmembrane protein [Herbaspi...    61   7e-11

>gi|300312390|ref|YP_003776482.1| lipoprotein [Herbaspirillum
           seropedicae SmR1]
          Length = 175

 Score =  326 bits (836), Expect = 6e-91,   Method: Compositional matrix adjust.
 Identities = 153/175 (87%), Positives = 161/175 (92%)

Query: 1   MREPIFTRLRRHAGHFGALLVALAMFGCDRNGNPIEEFGLDKLQKGVSSEADVRGVMGQP 60
           M +P FTRLRRHAG FGA LVALAM GCDRNG PIEEFGLDKLQKG+SSEADVR VMGQP
Sbjct: 1   MTDPFFTRLRRHAGKFGAFLVALAMLGCDRNGKPIEEFGLDKLQKGISSEADVRDVMGQP 60

Query: 61  DTVWEDGGGAKTLEYPKGPEGIRTWMFRIGASGTLIDYTQVLTQEHFDTIRPGMSTEQIR 120
           DTVW+DG GA+TLEYPKGP+GIRTWMF IGASGTLIDY QVLTQEHFDTIR GM+ EQIR
Sbjct: 61  DTVWDDGQGARTLEYPKGPQGIRTWMFSIGASGTLIDYQQVLTQEHFDTIRAGMTAEQIR 120

Query: 121 REFGRPRSVVQFARKNEEVWDWKYHYVHEDRLFNVHFDITTKQVVRTSISEISGH 175
           R+FGRPRSVVQF RKNEEVWDWKYHYVHEDRLFNVHFD+ TKQVVRTSISEISGH
Sbjct: 121 RQFGRPRSVVQFGRKNEEVWDWKYHYVHEDRLFNVHFDMNTKQVVRTSISEISGH 175


>gi|300311082|ref|YP_003775174.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 177

 Score = 60.8 bits (146), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 37/97 (38%), Positives = 48/97 (49%), Gaps = 2/97 (2%)

Query: 49  SEADVRGVMGQPDTVWEDGGGAKTLEYPKGPEGIRTWMFRIGASGTLIDYTQVLTQEHFD 108
            E  V   +G P  V+ DG   +  EY  GP     +M RIG    LI Y QV T E+F 
Sbjct: 44  PEDQVVARLGPPTNVYPDGN-VRVFEYGAGPFSQYQYMARIGPDHRLISYEQVWTIENFR 102

Query: 109 TIRPGMSTE-QIRREFGRPRSVVQFARKNEEVWDWKY 144
            IRP   T+  + R  GRP  V ++AR   E W++ Y
Sbjct: 103 AIRPKQDTKLDVLRRVGRPTEVTRYARIPFEAWNYGY 139


  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
   0.321    0.139    0.433 

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: 586,416
Number of extensions: 24889
Number of successful extensions: 48
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 47
Number of HSP's successfully gapped: 2
Length of query: 175
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 96
Effective length of database: 1,245,805
Effective search space: 119597280
Effective search space used: 119597280
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 127 (53.5 bits)