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= 0013.0003.p
         (248 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312412|ref|YP_003776504.1| outer membrane protein V [Herba...   297   6e-82

>gi|300312412|ref|YP_003776504.1| outer membrane protein V
           [Herbaspirillum seropedicae SmR1]
          Length = 253

 Score =  297 bits (760), Expect = 6e-82,   Method: Compositional matrix adjust.
 Identities = 140/245 (57%), Positives = 181/245 (73%)

Query: 4   TLLCALLLSFAGHAAAQQAAEADFPDHLRGDIGPGVFRLERNILGKSDVTQVLPYAYFDY 63
           +L C  L + A  AA Q        D + GDIG GV+R++RN L +S  T VLPYAYFDY
Sbjct: 9   SLACCALPALAQQAAPQDTDPLQLQDRITGDIGGGVYRMDRNGLDRSSRTTVLPYAYFDY 68

Query: 64  GRFFARLDTFGVKTVKFGAGYLELAARVNFDHMDAERGLNRRSNSVPLGIGTLQETRFGA 123
           GRFFAR+DTFGVKT + G GYLELA R+N +  DA+ GL RRS+ +PLG+G+ QET  GA
Sbjct: 69  GRFFARVDTFGVKTARMGYGYLELAGRINLEGFDAQGGLQRRSDPIPLGLGSFQETPIGA 128

Query: 124 FFLNAFYDVNKSHGTLLEAVYAAQFDLGRASFYPQVGIERRSSSYNNYFYGVTGQESTAS 183
           FFLN F+D NKSHGTL EA+YAAQ D+G  SFYPQVG+E R S YN+YFYGV+GQE+++S
Sbjct: 129 FFLNVFHDFNKSHGTLAEAIYAAQLDVGPVSFYPQVGVEYRDSRYNDYFYGVSGQEASSS 188

Query: 184 GFREYHAGASTTPMLGLTIEMPVAENWVANVTFRRKWLGNGIANSPIVNHSTENMGLVAI 243
           G   Y AG+ST+P+LGL  +MP++ NW  N+T RRKWL N I++SPI+   T+++ ++A+
Sbjct: 189 GLPAYRAGSSTSPLLGLVADMPISGNWRLNLTLRRKWLDNAISDSPIIRRKTDDLAILAL 248

Query: 244 NYHFK 248
            Y FK
Sbjct: 249 TYRFK 253


  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
   0.322    0.137    0.412 

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: 764,419
Number of extensions: 31454
Number of successful extensions: 57
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 57
Number of HSP's successfully gapped: 1
Length of query: 248
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 165
Effective length of database: 1,226,865
Effective search space: 202432725
Effective search space used: 202432725
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: 129 (54.3 bits)