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= 0025.0064.p
         (115 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313432|ref|YP_003777524.1| signal recognition particle GTP...   218   9e-59
gi|300309714|ref|YP_003773806.1| signal recognition particle sub...    85   1e-18

>gi|300313432|ref|YP_003777524.1| signal recognition particle GTPase
           involved in cell division protein [Herbaspirillum
           seropedicae SmR1]
          Length = 321

 Score =  218 bits (555), Expect = 9e-59,   Method: Compositional matrix adjust.
 Identities = 107/115 (93%), Positives = 111/115 (96%)

Query: 1   MVDTAGRLPTQLHLMDELKKIKRVIGKSMDTAPHEVLLVIDGNTGQNALAQVKAFDDALN 60
           MVDTAGRLPTQLHLMDELKKIKRVIGK+M +APHEVLLVIDGNTGQNALAQVKAFDDAL 
Sbjct: 207 MVDTAGRLPTQLHLMDELKKIKRVIGKAMHSAPHEVLLVIDGNTGQNALAQVKAFDDALG 266

Query: 61  LTGLVVTKLDGTAKGGILAAIAKTRPVPLYFIGVGESIDDLQAFDAEEFVDALLS 115
           LTGLVVTKLDGTAKGGILAAIAKTRPVPLYFIGVGE I+DLQAF+A EFVDALLS
Sbjct: 267 LTGLVVTKLDGTAKGGILAAIAKTRPVPLYFIGVGEQIEDLQAFNATEFVDALLS 321


>gi|300309714|ref|YP_003773806.1| signal recognition particle
           subunit SRP54 protein [Herbaspirillum seropedicae SmR1]
          Length = 456

 Score = 85.1 bits (209), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 47/114 (41%), Positives = 66/114 (57%), Gaps = 6/114 (5%)

Query: 1   MVDTAGRLPTQLHLMDELKKIKRVIGKSMDTAPHEVLLVIDGNTGQNALAQVKAFDDALN 60
           +VDTAGRL     +MDE++ +   I       P E L V+D   GQ+A+   KAF DAL 
Sbjct: 192 IVDTAGRLGIDQAMMDEIRAVHAAI------KPIETLFVVDAMLGQDAINTAKAFSDALP 245

Query: 61  LTGLVVTKLDGTAKGGILAAIAKTRPVPLYFIGVGESIDDLQAFDAEEFVDALL 114
           LTG+V+TKLDG ++GG   ++      P+ F GV E +D L+AFD     + +L
Sbjct: 246 LTGVVLTKLDGDSRGGAALSVRHITGKPIKFAGVAEKLDGLEAFDPSRMANRIL 299


  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    0.138    0.379 

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: 366,514
Number of extensions: 14538
Number of successful extensions: 62
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 61
Number of HSP's successfully gapped: 2
Length of query: 115
Length of database: 1,619,870
Length adjustment: 73
Effective length of query: 42
Effective length of database: 1,274,215
Effective search space: 53517030
Effective search space used: 53517030
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 (21.7 bits)
S2: 124 (52.4 bits)