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= 0001.3152.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...   327   4e-91
gi|300310012|ref|YP_003774104.1| outer membrane W protein [Herba...    64   6e-12

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

 Score =  327 bits (839), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 168/208 (80%), Positives = 187/208 (89%), Gaps = 1/208 (0%)

Query: 1   VKKIVTFTAAVAALASSFAAAPVFAQEAQSPWLVRVRAVNLSPENKSDQVGGVGASDRLT 60
           +KKIVT  AA AA ASS  AAPVFAQEAQSPWLVRVRAV+LSPENKSD + G GASD +T
Sbjct: 1   MKKIVTIAAAAAAFASS-FAAPVFAQEAQSPWLVRVRAVHLSPENKSDPINGQGASDLIT 59

Query: 61  INNKVIPEFDISYFFTPNIATELILTYPQKQDVRLDGNKIGSFKHLPPTLTVQYHFMPEA 120
           IN+K IPE DISYFFT NIA EL+LTYPQ+QDVRL+G+KIG+FKHLPP+L VQYHFMP++
Sbjct: 60  INSKTIPEVDISYFFTKNIAAELVLTYPQEQDVRLNGSKIGTFKHLPPSLLVQYHFMPDS 119

Query: 121 AFSPYVGAGINYTRISSVSLPGGLQLDSSSVGGALQFGADYKINKNWLINFDVKKVQISS 180
           AFSPYVGAGINYTRISSV++ GGLQLD+SS GGALQ GADYKINKNWLINFD+KKVQISS
Sbjct: 120 AFSPYVGAGINYTRISSVNISGGLQLDNSSFGGALQIGADYKINKNWLINFDIKKVQISS 179

Query: 181 DVKDATGTKISNVKIDPWLIGIGVGYRF 208
           DVK A G KIS+VKIDPWLIG+GVGYRF
Sbjct: 180 DVKTAAGAKISSVKIDPWLIGVGVGYRF 207


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

 Score = 64.3 bits (155), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 67/247 (27%), Positives = 105/247 (42%), Gaps = 41/247 (16%)

Query: 1   VKKIVTFTAAVAALASSFA-AAPVFAQEAQSPWLVRVRAVNLSPENKSDQV-------GG 52
           ++K  +F   +AAL+   A AAPV AQ A S  +V V   +L P++ S  +        G
Sbjct: 1   MQKQFSFLPKIAALSVMAAFAAPVMAQTAGSN-IVNVGWFHLQPQDSSSGLTKLNGPQAG 59

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

Query: 108 PTLTVQYHFM-PEAAFSPYVGAGINYTRISSVSLPGGLQLD-------------SSSVGG 153
           P +  +++F   + AF P+VGAG+ Y   S VSL    Q               SSS   
Sbjct: 120 PAIVAKWYFGGAQDAFRPFVGAGVTYVWYSDVSLSQAFQNRASLNSGGTATANLSSSWAP 179

Query: 154 ALQFGADYKINKNWLINFDVKKVQISSDVKDATGTKI------------SNVKIDPWLIG 201
            L  GA Y  N  W  +F V  + + +D  D T                + + +DP +  
Sbjct: 180 VLTGGATYAFNDRWSASFSVSYIPLKTDA-DITANPAGAFAGLGPQRYKTTITLDPIVTF 238

Query: 202 IGVGYRF 208
           + VGY+F
Sbjct: 239 LSVGYKF 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    0.395 

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: 596,273
Number of extensions: 23241
Number of successful extensions: 43
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 42
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)