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= 0015.0513.p
         (208 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...   341   2e-95
gi|300310012|ref|YP_003774104.1| outer membrane W protein [Herba...    61   6e-11

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

 Score =  341 bits (875), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 176/208 (84%), Positives = 192/208 (92%), Gaps = 1/208 (0%)

Query: 1   VKKIVTITAAVAALASSFAAAPVFAQEAQSPWLVRVRAVDLSPENKSDPVGGTGASDRIT 60
           +KKIVTI AA AA ASS  AAPVFAQEAQSPWLVRVRAV LSPENKSDP+ G GASD IT
Sbjct: 1   MKKIVTIAAAAAAFASS-FAAPVFAQEAQSPWLVRVRAVHLSPENKSDPINGQGASDLIT 59

Query: 61  INEKVIPELDISYFFTPNIAAELVLTYPQKQDVRLDGNKIGTFKHLPPTLLLQYHFMPEA 120
           IN K IPE+DISYFFT NIAAELVLTYPQ+QDVRL+G+KIGTFKHLPP+LL+QYHFMP++
Sbjct: 60  INSKTIPEVDISYFFTKNIAAELVLTYPQEQDVRLNGSKIGTFKHLPPSLLVQYHFMPDS 119

Query: 121 VFSPYVGAGINYTRISGVDLANGLQLDSNSVGGALQIGADYKINKNWLINFDIKKVQISS 180
            FSPYVGAGINYTRIS V+++ GLQLD++S GGALQIGADYKINKNWLINFDIKKVQISS
Sbjct: 120 AFSPYVGAGINYTRISSVNISGGLQLDNSSFGGALQIGADYKINKNWLINFDIKKVQISS 179

Query: 181 DVKTASGAKISSVKIDPWLIGVGVGYRF 208
           DVKTA+GAKISSVKIDPWLIGVGVGYRF
Sbjct: 180 DVKTAAGAKISSVKIDPWLIGVGVGYRF 207


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

 Score = 61.2 bits (147), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 64/246 (26%), Positives = 107/246 (43%), Gaps = 39/246 (15%)

Query: 1   VKKIVTITAAVAALASSFA-AAPVFAQEAQSPWLVRVRAVDLSPENKSD-------PVGG 52
           ++K  +    +AAL+   A AAPV AQ A S  +V V    L P++ S        P  G
Sbjct: 1   MQKQFSFLPKIAALSVMAAFAAPVMAQTAGSN-IVNVGWFHLQPQDSSSGLTKLNGPQAG 59

Query: 53  TGASDRITINEKVIPELDISYFFTPNIAAELVLTYPQKQDVRLDGN-----KIGTFKHLP 107
              +   T++      +  ++FFT N A    L  P +  ++  G+     ++G  K   
Sbjct: 60  FFPNSTSTVSNADTLGIAFTHFFTDNFAVTADLGIPPEFKLKGTGDLQALGELGKAKQWS 119

Query: 108 PTLLLQYHFM-PEAVFSPYVGAGINYTRISGVDLANGLQ----LDSNSVGGA-------- 154
           P ++ +++F   +  F P+VGAG+ Y   S V L+   Q    L+S     A        
Sbjct: 120 PAIVAKWYFGGAQDAFRPFVGAGVTYVWYSDVSLSQAFQNRASLNSGGTATANLSSSWAP 179

Query: 155 -LQIGADYKINKNWLINFDIKKVQISSDVK-TASGAKI----------SSVKIDPWLIGV 202
            L  GA Y  N  W  +F +  + + +D   TA+ A            +++ +DP +  +
Sbjct: 180 VLTGGATYAFNDRWSASFSVSYIPLKTDADITANPAGAFAGLGPQRYKTTITLDPIVTFL 239

Query: 203 GVGYRF 208
            VGY+F
Sbjct: 240 SVGYKF 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    0.135    0.394 

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: 609,582
Number of extensions: 24335
Number of successful extensions: 62
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 61
Number of HSP's successfully gapped: 2
Length of query: 208
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 127
Effective length of database: 1,236,335
Effective search space: 157014545
Effective search space used: 157014545
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)