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= 0035.0026.p
         (343 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...   536   e-154

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

 Score =  536 bits (1381), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 256/333 (76%), Positives = 289/333 (86%), Gaps = 9/333 (2%)

Query: 8   DQAAGFGKVGVLFGGRSAEREVSLMSGAGVLKALRSKGVDAHPFDPAERSLAELAAEKFD 67
           DQ   FG+VGVLFGGRSAEREVS+MSG GVL+ALRSKGVDAHPFDPAERSL EL AE+FD
Sbjct: 5   DQIKAFGRVGVLFGGRSAEREVSMMSGNGVLQALRSKGVDAHPFDPAERSLGELQAEQFD 64

Query: 68  RVFIALHGRYGEDGTLQGALEQLGIPYTGPGVMASSIAMDKVMTKRIWIGHDLPTPRFIV 127
           RVFIALHGRYGEDGTLQGALEQ+G+PYTGPGVM+SSIAMDKVMTKRIW+ H LPTPRF+ 
Sbjct: 65  RVFIALHGRYGEDGTLQGALEQMGLPYTGPGVMSSSIAMDKVMTKRIWLSHGLPTPRFLT 124

Query: 128 LDSASTPREELRQVPDVLGLPLMLKAPHEGSTIGIAKVAGYSDMQDGFNLCAQYDAVVLA 187
           LD+ +T RE+LR VPD LGLPLMLKAPHEGSTIGIAKV GYSDMQ+GF+LCA+YD VVLA
Sbjct: 125 LDAQATTREQLRLVPDTLGLPLMLKAPHEGSTIGIAKVNGYSDMQEGFDLCARYDKVVLA 184

Query: 188 EEFVAGRELTVPVMGKGTSGDNKAKAFPVIEIRAPEGNYDYQHKYFTDDTKYLCPAPIDE 247
           EEF+ GRELTVPV+G G++    A+A PVIEIRAPEGNYDYQ+KYFTDDTKYLCPAP+DE
Sbjct: 185 EEFIRGRELTVPVLGTGSA----ARALPVIEIRAPEGNYDYQNKYFTDDTKYLCPAPLDE 240

Query: 248 ALTQRVQX---KAYNALGCRGWSRVDFMLRASDN--EPFLLEINTSPGMTGHSLVPMSAR 302
            LT+ +Q    +A+NALGCRGWSRVDFMLR  D   EP+LLEINTSPGMTGHSLVPM+A+
Sbjct: 241 ELTRHLQNLAVQAFNALGCRGWSRVDFMLREVDGKAEPYLLEINTSPGMTGHSLVPMAAK 300

Query: 303 QAGMTYEDLCYEILKFAALDLKPSDAWKSHASK 335
             GM+YEDLC EIL+ AALD+ PS  W   A +
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
   0.318    0.135    0.400 

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: 1,145,471
Number of extensions: 49642
Number of successful extensions: 153
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 150
Number of HSP's successfully gapped: 1
Length of query: 343
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 257
Effective length of database: 1,212,660
Effective search space: 311653620
Effective search space used: 311653620
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: 41 (21.7 bits)
S2: 131 (55.1 bits)