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= 0027.0003.p
         (165 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310142|ref|YP_003774234.1| type IVB pilus formation outer ...   185   2e-48

>gi|300310142|ref|YP_003774234.1| type IVB pilus formation outer
           membrane protein [Herbaspirillum seropedicae SmR1]
          Length = 602

 Score =  185 bits (469), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 92/118 (77%), Positives = 105/118 (88%), Gaps = 2/118 (1%)

Query: 7   QNTGVASKLSVYTGLENAIKVMLSPYGKVLASPATGAITVVDTPDSLDRVAAYIEGENKA 66
           QNT VASKLSVYTG+E+AIKVMLSPYGKVLASPATG+ITVVDTPDSLDR+A YI+GENK+
Sbjct: 290 QNTAVASKLSVYTGIESAIKVMLSPYGKVLASPATGSITVVDTPDSLDRIATYIDGENKS 349

Query: 67  LSRQIAINVTVLSVSLRDADEYGINWSAVYNSLNRRYGISNSF--APSDGAVGFTAGI 122
           LSRQIAINVTVLSV+L D D+YGINW+AVY SLN  +GI+N++  A S G V FTAGI
Sbjct: 350 LSRQIAINVTVLSVTLSDDDQYGINWNAVYRSLNSTFGIANAYEGALSTGLVSFTAGI 407


  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
   0.314    0.130    0.366 

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: 484,316
Number of extensions: 18278
Number of successful extensions: 38
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 38
Number of HSP's successfully gapped: 1
Length of query: 165
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 87
Effective length of database: 1,250,540
Effective search space: 108796980
Effective search space used: 108796980
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: 42 (22.0 bits)
S2: 127 (53.5 bits)