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= 0001.0311.p
         (334 letters)

Database: BlastDatabases/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134095969|ref|YP_001101044.1| D-alanine--D-alanine ligase [He...   488   e-139

>gi|134095969|ref|YP_001101044.1| D-alanine--D-alanine ligase
           [Herminiimonas arsenicoxydans]
          Length = 334

 Score =  488 bits (1255), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 229/327 (70%), Positives = 269/327 (82%), Gaps = 2/327 (0%)

Query: 4   QDQIKAFGRVGVLFGGRSAEREVSLMSGNGVLQALRSKGVDAHPFDPAERSLGELQAEQF 63
           Q+    FG+VGVLFGGRSAEREVSLMSG GVL AL+SKGVDAH FDPAERSL EL AE+F
Sbjct: 6   QNLKAEFGKVGVLFGGRSAEREVSLMSGKGVLAALQSKGVDAHAFDPAERSLAELAAEKF 65

Query: 64  DRVFIALHGRYGEDGTLQGALEQMGLPYTGPGVMASSIAMDKIMTKRIWLSHGLVTPRFL 123
           DRVFIALHG YGEDGTLQGALEQ+G+PYTGPGVMAS+I+MDK+MTKR+ LSHG+ TPRF 
Sbjct: 66  DRVFIALHGSYGEDGTLQGALEQLGIPYTGPGVMASAISMDKVMTKRVCLSHGVPTPRFT 125

Query: 124 SLDAKSTTREQLRVVPDELGLPLMLKAPHEGSTIGIAKVNGYSDMQVSFDLCARYDSVVL 183
            LDA++T+  QL+ V  E GLPLMLKAPHEGSTIGIAKV     MQ  FDLCA+Y++VVL
Sbjct: 126 VLDAETTSAAQLQSVAAEFGLPLMLKAPHEGSTIGIAKVETAEGMQAGFDLCAKYEAVVL 185

Query: 184 AEEFIRGRELTVPVLGKGRDARALPIIEICAPGGNYDYQNKYFTDDTKYYCPAPLDEELT 243
            E+F++GRELTVPV+G GR+ARALPI+EI AP GNYDY++KYF++DT+Y CPAP DE  T
Sbjct: 186 VEQFVKGRELTVPVIGSGRNARALPIVEIRAPQGNYDYEHKYFSNDTEYLCPAPFDEAFT 245

Query: 244 RHIQDLAVRAFNALGCRGWSRVDFMLREGDGKAEPYLIEINTSPGMTGHSLVPMAAKAVG 303
           + +Q LAV AFNA+GC GWSRVDFM+R  D   EP+L+EINTSPGMT HSLVPM+AK  G
Sbjct: 246 KRVQALAVSAFNAVGCTGWSRVDFMVRASDN--EPFLLEINTSPGMTSHSLVPMSAKVAG 303

Query: 304 MSYEDLCCEILQMAALDMRPSKDWTPQ 330
             YEDLC EIL+ A  +++PS     Q
Sbjct: 304 TGYEDLCIEILRSAKTELKPSSHMQLQ 330


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
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: 3295
Number of Hits to DB: 665,534
Number of extensions: 28130
Number of successful extensions: 85
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 84
Number of HSP's successfully gapped: 1
Length of query: 334
Length of database: 1,000,347
Length adjustment: 82
Effective length of query: 252
Effective length of database: 730,157
Effective search space: 183999564
Effective search space used: 183999564
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: 129 (54.3 bits)