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= 0102.0024.p
         (254 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311372|ref|YP_003775464.1| flagellum-specific ATP synthase...   232   2e-62
gi|300310125|ref|YP_003774217.1| type III secretion ATP synthase...   107   7e-25

>gi|300311372|ref|YP_003775464.1| flagellum-specific ATP synthase
           [Herbaspirillum seropedicae SmR1]
          Length = 468

 Score =  232 bits (592), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 122/141 (86%), Positives = 130/141 (92%), Gaps = 1/141 (0%)

Query: 1   MNSPMPSHFSRWQAYLHNCSGLVAMTEPTQLSGRITRVAGLVMEAVGLKLPVGSPCTVPL 60
           MNSPMPSH S WQAYLHNC  LVAM EPT  +GRITRVAGLVMEAVGLKLPVGSPC VPL
Sbjct: 1   MNSPMPSHSSLWQAYLHNCRSLVAMAEPTMTAGRITRVAGLVMEAVGLKLPVGSPCNVPL 60

Query: 61  PNGTLIEAEVVGFQDERLFLMPQSDVEGIVPGTRVYPVEPVKPPPRTGPIAYI-RRNDEH 119
           PNGT+IEAEVVGFQD+RLFLMPQSDVEGIVPGTRVYPVEPV+PPPRTGPI++  RR DEH
Sbjct: 61  PNGTMIEAEVVGFQDDRLFLMPQSDVEGIVPGTRVYPVEPVRPPPRTGPISFTPRRADEH 120

Query: 120 TRRLPVGDELLGRVLDGAGRP 140
           +RRLPVG+ELLGRVLDGAGRP
Sbjct: 121 SRRLPVGEELLGRVLDGAGRP 141



 Score =  192 bits (488), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 96/111 (86%), Positives = 103/111 (92%)

Query: 143 ARAILDGHIVLNRVLAEAGHYPAIDIEQSISRAMHSITSAEHQRDTRRLKQLYSRYQRNR 202
           ARAILDGHIVLNR LAEAGHYPAIDIEQSISRAMHSIT AEHQR +R LKQLYSR+QRNR
Sbjct: 357 ARAILDGHIVLNRQLAEAGHYPAIDIEQSISRAMHSITDAEHQRSSRHLKQLYSRFQRNR 416

Query: 203 DLISVGAYSAGSDPVLDQAIQLLPRIEAFLQQGIPERAGVSESLGQLTALF 253
           DLISVGAY+AGSDP+LD+AI LLPR+EAFLQQGI E+A VSESL QLTALF
Sbjct: 417 DLISVGAYAAGSDPILDEAIALLPRMEAFLQQGIHEQADVSESLRQLTALF 467


>gi|300310125|ref|YP_003774217.1| type III secretion ATP synthase
           [Herbaspirillum seropedicae SmR1]
          Length = 460

 Score =  107 bits (268), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 57/131 (43%), Positives = 79/131 (60%), Gaps = 14/131 (10%)

Query: 124 PVGDELLGRVLDGAGRPXRARAILDGHIVLNRVLAEAGHYPAIDIEQSISRAMHSITSAE 183
           P+GDE              A+++LDGHI+L R LAE GHYPAID+  SISR M ++TS E
Sbjct: 344 PIGDE--------------AKSLLDGHILLTRKLAEQGHYPAIDVLASISRVMSNVTSRE 389

Query: 184 HQRDTRRLKQLYSRYQRNRDLISVGAYSAGSDPVLDQAIQLLPRIEAFLQQGIPERAGVS 243
           H+R   R ++L +RYQ    LI +G Y +G+DPV D+A++L P   +FL+Q     A   
Sbjct: 390 HRRAASRFRELLARYQEMELLIRLGEYKSGADPVADRAMELRPEQLSFLRQDTSGSADFQ 449

Query: 244 ESLGQLTALFQ 254
           E+L  L  + Q
Sbjct: 450 ETLDTLMEMAQ 460


  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
   0.320    0.137    0.404 

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: 864,747
Number of extensions: 39721
Number of successful extensions: 114
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 114
Number of HSP's successfully gapped: 3
Length of query: 254
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 171
Effective length of database: 1,226,865
Effective search space: 209793915
Effective search space used: 209793915
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: 129 (54.3 bits)