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= 0003.0059.p
         (364 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312865|ref|YP_003776957.1| Lipid A core - O-antigen ligase...   389   e-109
gi|300312860|ref|YP_003776952.1| Lipid A core - O-antigen ligase...   221   9e-59

>gi|300312865|ref|YP_003776957.1| Lipid A core - O-antigen ligase
           [Herbaspirillum seropedicae SmR1]
          Length = 402

 Score =  389 bits (999), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 214/361 (59%), Positives = 274/361 (75%), Gaps = 5/361 (1%)

Query: 1   VSRDDKLIMAVFCFYFVVSVAMNLLHGEIVKEYDLPLRFLLAVPALLLLRAYPPSPALFW 60
           ++R+D+LI+AV   YF V+VAM LLH E  KEYDLPLRF LA  ALLLLRAYPP+PA FW
Sbjct: 46  LNREDRLILAVLLAYFAVTVAMLLLHHESGKEYDLPLRFFLAAAALLLLRAYPPAPAAFW 105

Query: 61  SGLIIGGILAGLYTGWQNLFVYAGTMIRSGGHTNPIQYGNISSLVGMLCLAGLGWAIQQK 120
           SGLI+GGI AG++ GWQ    Y    +R+ G+TN IQYG+IS ++G+LCL G+ WA+QQ+
Sbjct: 106 SGLILGGIGAGVFAGWQ----YFAHNVRATGYTNAIQYGDISFIIGILCLTGITWAMQQR 161

Query: 121 SSVYWVIFLLCGFFMGMLGSLFTGSRGSWVGLPFCLWILYRAYGGEVSKRYVLGGFTAVV 180
           ++  WV  L+ G  MG++GSLFTGSRGSWV LP CL IL   Y   +  RYV G   A+V
Sbjct: 162 AARAWVALLIVGGVMGLMGSLFTGSRGSWVALPICLLILCVYYSRSIPARYVWGSLAALV 221

Query: 181 VAIAVAYAI-PRTAVKERAHLAVSETLSYLKTRNADSSLGTRMEMWRVGFMAATERPLLG 239
            AIA+ + + P T  + R  LA SE  +Y++ ++ADSS+GTRMEMWR G MA  E P+LG
Sbjct: 222 AAIAIVFTVMPSTDFRARISLAFSEASTYMQKKDADSSIGTRMEMWRAGAMAVAEAPVLG 281

Query: 240 FGKAGLVKWESAEIAAGRIDPLMEGNNHVYNEWLDAIAKRGLPGLIALLVLYAIPLRLFM 299
            GKAG V+WE+ +I AG+I+ LM GNNHVYNEWLDA+ KRG+PGL+ LL LY +PLRLF+
Sbjct: 282 MGKAGFVQWETGQIEAGKINALMSGNNHVYNEWLDALVKRGVPGLLVLLALYFVPLRLFI 341

Query: 300 QHAKTASRRAKPYAIGGMMLVVNYICFGFSQVFMAHNTGVMTLAFSTVILWGLLRGEEAK 359
              K+A  +AKPYA+GG++L+VNYI FGFSQVF+AHN+GVMTL F+ VILWG+LRGEE++
Sbjct: 342 ARLKSAPEQAKPYALGGVLLIVNYIGFGFSQVFLAHNSGVMTLGFTMVILWGMLRGEESR 401

Query: 360 E 360
            
Sbjct: 402 S 402


>gi|300312860|ref|YP_003776952.1| Lipid A core - O-antigen ligase
           [Herbaspirillum seropedicae SmR1]
          Length = 426

 Score =  221 bits (562), Expect = 9e-59,   Method: Compositional matrix adjust.
 Identities = 160/367 (43%), Positives = 230/367 (62%), Gaps = 15/367 (4%)

Query: 3   RDDKLIMAVFCFYFVVSVAMNLLHGEIVKEYDLPLRFLLAVPALLLLRAYPPSPALFWSG 62
           R+D LIM     YF V+  +NL+H    +EYD PLRFLLA+PALLLLRAYPP P   W+G
Sbjct: 67  REDWLIMLALLSYFFVNAGLNLVHQAPGREYDAPLRFLLAIPALLLLRAYPPRPGALWTG 126

Query: 63  LIIGGILAGLYTGWQNLFVYAGTMIRSGGHTNPIQYGNISSLVGMLCLAGLGWAIQQKSS 122
             IG + AGL + WQ L   A    R GG TNPIQYGNI++L+ +L   GL  AI+ +  
Sbjct: 127 AAIGAVGAGLLSLWQWL---ADGAARPGGSTNPIQYGNIAALLAILAACGLARAIRLQQP 183

Query: 123 VYWVIFLLCGFFMGMLGSLFTGSRGSWVGLPFCL----WILYRAYGGEVSKRYVLG-GFT 177
           + W +    G  +G+  S+ +GSRGSW+ LP C     W+L RA  G       LG G  
Sbjct: 184 LRWKLMHAAGLILGLTASILSGSRGSWLALPVCATLAAWLLLRA--GYARLVLQLGAGSL 241

Query: 178 AVVVAIAVAYAIPRTAVKERAHLAVSETLSYLKTRNADSSLGTRMEMWRVGFMAATERPL 237
           A++V +A+   +P++ +  R  LA++ET  Y++  +ADSS+GTR+EMWR+G   A +  L
Sbjct: 242 AMLVCLAL---LPQSPLSARLRLALAETNDYVQRADADSSVGTRLEMWRIGMQLAPQHLL 298

Query: 238 LGFGKAGLVKWESAEIAAGRIDPLMEGNNHVYNEWLDAIAKRGLPGLIALLVLYAIPLRL 297
           +G+GK G++  +   ++ G+  P ++ + H++NE+LDA+ KRG+PGL ALLVLY +PL L
Sbjct: 299 VGWGKQGMIDAKHEMVSQGQASPSVDEHTHLHNEYLDALVKRGIPGLAALLVLYLLPLWL 358

Query: 298 FMQHAKTAS-RRAKPYAIGGMMLVVNYICFGFSQVFMAHNTGVMTLAFSTVILWGLLRGE 356
           F +  + A+   A+  A  G+M+V++Y+ FG +Q F+ HN GVM  AF   ILW L + E
Sbjct: 359 FHRQRRLAAGYEARLAASAGVMMVLSYLAFGLTQAFLTHNNGVMLYAFLCSILWALCQ-E 417

Query: 357 EAKENAQ 363
           +A   A 
Sbjct: 418 QAVHPAN 424


  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
   0.327    0.141    0.445 

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: 1,018,788
Number of extensions: 40177
Number of successful extensions: 176
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 171
Number of HSP's successfully gapped: 2
Length of query: 364
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 278
Effective length of database: 1,212,660
Effective search space: 337119480
Effective search space used: 337119480
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 131 (55.1 bits)