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= 0022.0185.p
         (328 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309680|ref|YP_003773772.1| D-alanine-D-alanine ligase B pr...   611   e-176

>gi|300309680|ref|YP_003773772.1| D-alanine-D-alanine ligase B
           protein [Herbaspirillum seropedicae SmR1]
          Length = 334

 Score =  611 bits (1575), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 296/333 (88%), Positives = 310/333 (93%), Gaps = 6/333 (1%)

Query: 1   MISQDQIKAFGRVGVLFGGRSAEREVSMMSGNGVLQALRSKGVDAH------QGARELQA 54
           MISQDQIKAFGRVGVLFGGRSAEREVSMMSGNGVLQALRSKGVDAH      +   ELQA
Sbjct: 1   MISQDQIKAFGRVGVLFGGRSAEREVSMMSGNGVLQALRSKGVDAHPFDPAERSLGELQA 60

Query: 55  EKFDRVFIALHGRYGEDGTLQGALEQMGLPYTGPGVMASSIAMDKIMTKRIWLSHGLTTP 114
           E+FDRVFIALHGRYGEDGTLQGALEQMGLPYTGPGVM+SSIAMDK+MTKRIWLSHGL TP
Sbjct: 61  EQFDRVFIALHGRYGEDGTLQGALEQMGLPYTGPGVMSSSIAMDKVMTKRIWLSHGLPTP 120

Query: 115 RFLSLDAKATTREQLRVVPDELGLPLMLKAPHEGSTIGIAKVNGYSDMQVSFDMCARYDS 174
           RFL+LDA+ATTREQLR+VPD LGLPLMLKAPHEGSTIGIAKVNGYSDMQ  FD+CARYD 
Sbjct: 121 RFLTLDAQATTREQLRLVPDTLGLPLMLKAPHEGSTIGIAKVNGYSDMQEGFDLCARYDK 180

Query: 175 VVLAEEFIRGRELTVPVLGKGRDARALPIIEICAPGGNYDYQNKYFSDDTKYYCPAPLDE 234
           VVLAEEFIRGRELTVPVLG G  ARALP+IEI AP GNYDYQNKYF+DDTKY CPAPLDE
Sbjct: 181 VVLAEEFIRGRELTVPVLGTGSAARALPVIEIRAPEGNYDYQNKYFTDDTKYLCPAPLDE 240

Query: 235 ELTHHIQDLAVRAFNALGCRGWSRVDFMLREGDGKAEPYLIEINTSPGMTGHSLVPMAAK 294
           ELT H+Q+LAV+AFNALGCRGWSRVDFMLRE DGKAEPYL+EINTSPGMTGHSLVPMAAK
Sbjct: 241 ELTRHLQNLAVQAFNALGCRGWSRVDFMLREVDGKAEPYLLEINTSPGMTGHSLVPMAAK 300

Query: 295 AVGMSYEDLCCEILQMAALDMRPSKDWTPQAGQ 327
           AVGMSYEDLCCEILQMAALDM PSKDWTPQAGQ
Sbjct: 301 AVGMSYEDLCCEILQMAALDMTPSKDWTPQAGQ 333


  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    0.410 

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: 1,090,031
Number of extensions: 47227
Number of successful extensions: 126
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 125
Number of HSP's successfully gapped: 1
Length of query: 328
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 242
Effective length of database: 1,212,660
Effective search space: 293463720
Effective search space used: 293463720
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: 131 (55.1 bits)