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= 0007.0117.p
         (205 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...   284   3e-78
gi|300310012|ref|YP_003774104.1| outer membrane W protein [Herba...    63   1e-11

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

 Score =  284 bits (727), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 135/186 (72%), Positives = 159/186 (85%), Gaps = 1/186 (0%)

Query: 20  FAAAQESPWLVRVRAVNLSPDNKSDPVGGVGASDRLTVSSKTIPEVDISYFFTPNWAAEL 79
           FA   +SPWLVRVRAV+LSP+NKSDP+ G GASD +T++SKTIPEVDISYFFT N AAEL
Sbjct: 23  FAQEAQSPWLVRVRAVHLSPENKSDPINGQGASDLITINSKTIPEVDISYFFTKNIAAEL 82

Query: 80  ILTYPQKHDVRLDGQTIGSFKHLPPTLLAQYHFTPASTFSPYVGAGINYTRISDVNLLNG 139
           +LTYPQ+ DVRL+G  IG+FKHLPP+LL QYHF P S FSPYVGAGINYTRIS VN ++G
Sbjct: 83  VLTYPQEQDVRLNGSKIGTFKHLPPSLLVQYHFMPDSAFSPYVGAGINYTRISSVN-ISG 141

Query: 140 GARLESHSIGGALQAGFDVKLDRHWLINFDVKKVQIRSDVLAANGAKLSTVKIDPWLIGV 199
           G +L++ S GGALQ G D K++++WLINFD+KKVQI SDV  A GAK+S+VKIDPWLIGV
Sbjct: 142 GLQLDNSSFGGALQIGADYKINKNWLINFDIKKVQISSDVKTAAGAKISSVKIDPWLIGV 201

Query: 200 GVGYRF 205
           GVGYRF
Sbjct: 202 GVGYRF 207


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

 Score = 63.2 bits (152), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 68/245 (27%), Positives = 104/245 (42%), Gaps = 40/245 (16%)

Query: 1   MKKIAILLASAATLSVAGPFAA---AQES-PWLVRVRAVNLSPDNKSD-------PVGGV 49
           M+K    L   A LSV   FAA   AQ +   +V V   +L P + S        P  G 
Sbjct: 1   MQKQFSFLPKIAALSVMAAFAAPVMAQTAGSNIVNVGWFHLQPQDSSSGLTKLNGPQAGF 60

Query: 50  GASDRLTVSSKTIPEVDISYFFTPNWAAELILTYPQKHDVRLDGQ-----TIGSFKHLPP 104
             +   TVS+     +  ++FFT N+A    L  P +  ++  G       +G  K   P
Sbjct: 61  FPNSTSTVSNADTLGIAFTHFFTDNFAVTADLGIPPEFKLKGTGDLQALGELGKAKQWSP 120

Query: 105 TLLAQYHFTPAS-TFSPYVGAGINYTRISDVNL---------LNGGARLE---SHSIGGA 151
            ++A+++F  A   F P+VGAG+ Y   SDV+L         LN G       S S    
Sbjct: 121 AIVAKWYFGGAQDAFRPFVGAGVTYVWYSDVSLSQAFQNRASLNSGGTATANLSSSWAPV 180

Query: 152 LQAGFDVKLDRHWLINFDVKKVQIRSDV-LAANGAKL----------STVKIDPWLIGVG 200
           L  G     +  W  +F V  + +++D  + AN A            +T+ +DP +  + 
Sbjct: 181 LTGGATYAFNDRWSASFSVSYIPLKTDADITANPAGAFAGLGPQRYKTTITLDPIVTFLS 240

Query: 201 VGYRF 205
           VGY+F
Sbjct: 241 VGYKF 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
   0.319    0.136    0.408 

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: 641,377
Number of extensions: 26190
Number of successful extensions: 62
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 59
Number of HSP's successfully gapped: 2
Length of query: 205
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 124
Effective length of database: 1,236,335
Effective search space: 153305540
Effective search space used: 153305540
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 (21.8 bits)
S2: 128 (53.9 bits)