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= 0004.0012.p
         (284 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310503|ref|YP_003774595.1| 3-deoxy-manno-octulosonate cyti...   494   e-141

>gi|300310503|ref|YP_003774595.1| 3-deoxy-manno-octulosonate
           cytidylyltransferase [Herbaspirillum seropedicae SmR1]
          Length = 271

 Score =  494 bits (1272), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 248/271 (91%), Positives = 261/271 (96%)

Query: 14  MTFTVIIPARLASTRLPNKPLADLGGKPMIVRVAERAALSGATRIIVATDHHDIHAACEQ 73
           M+FTVIIPARLASTRLPNKPLADLGGKPMIVRVAERAA SGA RIIVATDHHDIHAAC+ 
Sbjct: 1   MSFTVIIPARLASTRLPNKPLADLGGKPMIVRVAERAAQSGAARIIVATDHHDIHAACQA 60

Query: 74  HGIEVAMTRADHPSGTDRIAEVAAALGLTEDEVVVNVQGDEPLIDPGLIAATAAHIKDGV 133
           HG+EVAMTRADHPSGTDRIAEVAAAL L ED VVVNVQGDEPLIDPGLIAATAAHIK GV
Sbjct: 61  HGVEVAMTRADHPSGTDRIAEVAAALDLAEDAVVVNVQGDEPLIDPGLIAATAAHIKPGV 120

Query: 134 PMATAAHAIGTAEDAFNPNVVKVVLNKDGCAMYFSRATIPWHRDAFAKSRESLPDASGPD 193
           PMATAAHAI +A DAFNPNVVKVVLNK+GCAMYFSRATIPWHRDAFA+SRE LPDASGPD
Sbjct: 121 PMATAAHAIESAADAFNPNVVKVVLNKEGCAMYFSRATIPWHRDAFAQSREVLPDASGPD 180

Query: 194 HSNEYVPLRHIGLYAYSNRFLQLYPTLAPAPLERIEALEQLRVLWHGHAIAVHVTSMVPE 253
           H+NEYVPLRHIGLYAYSNRFLQLYPTL+P+P+ERIEALEQLRVLWHGHAIAVHVTS++PE
Sbjct: 181 HANEYVPLRHIGLYAYSNRFLQLYPTLSPSPVERIEALEQLRVLWHGHAIAVHVTSLLPE 240

Query: 254 AGVDTPEDLLRVRKHFEAPPDSPLVQTISAL 284
           AGVDTPEDLLRVRKHFEAPPDSPLVQTIS+L
Sbjct: 241 AGVDTPEDLLRVRKHFEAPPDSPLVQTISSL 271


  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    0.134    0.402 

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: 965,323
Number of extensions: 42628
Number of successful extensions: 161
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 161
Number of HSP's successfully gapped: 1
Length of query: 284
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 200
Effective length of database: 1,222,130
Effective search space: 244426000
Effective search space used: 244426000
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: 130 (54.7 bits)