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= 0002.0140.p
         (207 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312492|ref|YP_003776584.1| outer membrane W protein [Herba...   417   e-118
gi|300310012|ref|YP_003774104.1| outer membrane W protein [Herba...    73   1e-14

>gi|300312492|ref|YP_003776584.1| outer membrane W protein
           [Herbaspirillum seropedicae SmR1]
          Length = 207

 Score =  417 bits (1071), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 206/207 (99%), Positives = 207/207 (100%)

Query: 1   VKKIVTIAAAAAAFASSFAAPVFAQEAQSPWLVRVRAVHLSPENKSDPINGQGASDLITI 60
           +KKIVTIAAAAAAFASSFAAPVFAQEAQSPWLVRVRAVHLSPENKSDPINGQGASDLITI
Sbjct: 1   MKKIVTIAAAAAAFASSFAAPVFAQEAQSPWLVRVRAVHLSPENKSDPINGQGASDLITI 60

Query: 61  NSKTIPEVDISYFFTKNIAAELVLTYPQEQDVRLNGSKIGTFKHLPPSLLVQYHFMPDSA 120
           NSKTIPEVDISYFFTKNIAAELVLTYPQEQDVRLNGSKIGTFKHLPPSLLVQYHFMPDSA
Sbjct: 61  NSKTIPEVDISYFFTKNIAAELVLTYPQEQDVRLNGSKIGTFKHLPPSLLVQYHFMPDSA 120

Query: 121 FSPYVGAGINYTRISSVNISGGLQLDNSSFGGALQIGADYKINKNWLINFDIKKVQISSD 180
           FSPYVGAGINYTRISSVNISGGLQLDNSSFGGALQIGADYKINKNWLINFDIKKVQISSD
Sbjct: 121 FSPYVGAGINYTRISSVNISGGLQLDNSSFGGALQIGADYKINKNWLINFDIKKVQISSD 180

Query: 181 VKTAAGAKISSVKIDPWLIGVGVGYRF 207
           VKTAAGAKISSVKIDPWLIGVGVGYRF
Sbjct: 181 VKTAAGAKISSVKIDPWLIGVGVGYRF 207


>gi|300310012|ref|YP_003774104.1| outer membrane W protein
           [Herbaspirillum seropedicae SmR1]
          Length = 245

 Score = 73.2 bits (178), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 67/235 (28%), Positives = 108/235 (45%), Gaps = 38/235 (16%)

Query: 10  AAAAFASSFAAPVFAQEAQSPWLVRVRAVHLSPENKSD---PINGQGA----SDLITINS 62
           AA +  ++FAAPV AQ A S  +V V   HL P++ S     +NG  A    +   T+++
Sbjct: 12  AALSVMAAFAAPVMAQTAGSN-IVNVGWFHLQPQDSSSGLTKLNGPQAGFFPNSTSTVSN 70

Query: 63  KTIPEVDISYFFTKNIAAELVLTYPQEQDVRLNG-----SKIGTFKHLPPSLLVQYHFM- 116
                +  ++FFT N A    L  P E  ++  G      ++G  K   P+++ +++F  
Sbjct: 71  ADTLGIAFTHFFTDNFAVTADLGIPPEFKLKGTGDLQALGELGKAKQWSPAIVAKWYFGG 130

Query: 117 PDSAFSPYVGAGINYTRISSVNI-----------SGGLQLDN--SSFGGALQIGADYKIN 163
              AF P+VGAG+ Y   S V++           SGG    N  SS+   L  GA Y  N
Sbjct: 131 AQDAFRPFVGAGVTYVWYSDVSLSQAFQNRASLNSGGTATANLSSSWAPVLTGGATYAFN 190

Query: 164 KNWLINFDIKKVQISSD---VKTAAGAKI--------SSVKIDPWLIGVGVGYRF 207
             W  +F +  + + +D       AGA          +++ +DP +  + VGY+F
Sbjct: 191 DRWSASFSVSYIPLKTDADITANPAGAFAGLGPQRYKTTITLDPIVTFLSVGYKF 245


  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
   0.318    0.134    0.388 

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: 579,909
Number of extensions: 21855
Number of successful extensions: 48
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 48
Number of HSP's successfully gapped: 2
Length of query: 207
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 126
Effective length of database: 1,236,335
Effective search space: 155778210
Effective search space used: 155778210
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 128 (53.9 bits)