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= 0009.0087.p
         (257 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310012|ref|YP_003774104.1| outer membrane W protein [Herba...   329   1e-91
gi|300312492|ref|YP_003776584.1| outer membrane W protein [Herba...    68   6e-13

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

 Score =  329 bits (844), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 170/257 (66%), Positives = 197/257 (76%), Gaps = 12/257 (4%)

Query: 1   MKQQFSLLPKIAALSIAAAFAAPAMAQTAGSNVVNVGWFHLAPQDSSETLRKIDGPNAGP 60
           M++QFS LPKIAALS+ AAFAAP MAQTAGSN+VNVGWFHL PQDSS  L K++GP AG 
Sbjct: 1   MQKQFSFLPKIAALSVMAAFAAPVMAQTAGSNIVNVGWFHLQPQDSSSGLTKLNGPQAGF 60

Query: 61  IAGSGASISNADTVGVALTHFFTDNFALTADVGIPPKFKLNGTGTLQGVGEIGNAKQWSP 120
              S +++SNADT+G+A THFFTDNFA+TAD+GIPP+FKL GTG LQ +GE+G AKQWSP
Sbjct: 61  FPNSTSTVSNADTLGIAFTHFFTDNFAVTADLGIPPEFKLKGTGDLQALGELGKAKQWSP 120

Query: 121 AIVAKWFFGDGNSKFRPFVGAGVTYVWYSDVKLSSNFQQTISRSYSGPFASTSATSTADL 180
           AIVAKW+FG     FRPFVGAGVTYVWYSDV LS  FQ   S +  G       T+TA+L
Sbjct: 121 AIVAKWYFGGAQDAFRPFVGAGVTYVWYSDVSLSQAFQNRASLNSGG-------TATANL 173

Query: 181 SSSWAPVLNLGATYNFDNNWSLGFSVSYIPLKTDATITTTGLPTGTGSGAAANGPVTSRT 240
           SSSWAPVL  GATY F++ WS  FSVSYIPLKTDA IT    P G  +G    GP   +T
Sbjct: 174 SSSWAPVLTGGATYAFNDRWSASFSVSYIPLKTDADITAN--PAGAFAGL---GPQRYKT 228

Query: 241 SLTLNPIVTFLSVGYKF 257
           ++TL+PIVTFLSVGYKF
Sbjct: 229 TITLDPIVTFLSVGYKF 245


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

 Score = 68.2 bits (165), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 64/242 (26%), Positives = 105/242 (43%), Gaps = 62/242 (25%)

Query: 23  PAMAQTAGSN-VVNVGWFHLAPQDSSETLRKIDGPNAGPIAGSGAS----ISNADTVGVA 77
           P  AQ A S  +V V   HL+P++ S+           PI G GAS    I++     V 
Sbjct: 21  PVFAQEAQSPWLVRVRAVHLSPENKSD-----------PINGQGASDLITINSKTIPEVD 69

Query: 78  LTHFFTDNFALTADVGIPPK--FKLNGTGTLQGVGEIGNAKQWSPAIVAKWFFGDGNSKF 135
           +++FFT N A    +  P +   +LNG+       +IG  K   P+++ ++ F   +S F
Sbjct: 70  ISYFFTKNIAAELVLTYPQEQDVRLNGS-------KIGTFKHLPPSLLVQYHFMP-DSAF 121

Query: 136 RPFVGAGVTYVWYSDVKLSSNFQQTISRSYSGPFASTSATSTADLSSSWAPVLNLGATYN 195
            P+VGAG+ Y   S V +S   Q                      +SS+   L +GA Y 
Sbjct: 122 SPYVGAGINYTRISSVNISGGLQLD--------------------NSSFGGALQIGADYK 161

Query: 196 FDNNWSLGFSVSYIPLKTDATITTTGLPTGTGSGAAANGPVTSRTSLTLNPIVTFLSVGY 255
            + NW + F +  + + +D           T +GA         +S+ ++P +  + VGY
Sbjct: 162 INKNWLINFDIKKVQISSDVK---------TAAGAKI-------SSVKIDPWLIGVGVGY 205

Query: 256 KF 257
           +F
Sbjct: 206 RF 207


  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
   0.315    0.130    0.390 

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: 674,890
Number of extensions: 26041
Number of successful extensions: 82
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 80
Number of HSP's successfully gapped: 2
Length of query: 257
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 174
Effective length of database: 1,226,865
Effective search space: 213474510
Effective search space used: 213474510
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 (21.6 bits)
S2: 129 (54.3 bits)