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= 0002.0705.p
         (381 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313593|ref|YP_003777685.1| D-alanyl-D-alanine carboxypepti...   664   0.0  
gi|300313783|ref|YP_003777875.1| D-alanyl-D-alanine carboxypepti...    59   6e-10

>gi|300313593|ref|YP_003777685.1| D-alanyl-D-alanine
           carboxypeptidase (penicillin-binding) transmembrane
           protein [Herbaspirillum seropedicae SmR1]
          Length = 384

 Score =  664 bits (1712), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 332/384 (86%), Positives = 359/384 (93%), Gaps = 3/384 (0%)

Query: 1   MKKLLAAIAATVLSFS---AAAQSLPPPSVAAKSWLLLDASSNQIIASQEADTRVEPASL 57
           MKKLLAA+AATVLS S   A+AQSLPPP+VAAKSWLLLDAS+NQ+IAS + DTRVEPASL
Sbjct: 1   MKKLLAALAATVLSISTLTASAQSLPPPTVAAKSWLLLDASANQVIASSDPDTRVEPASL 60

Query: 58  VKLMTAYLAFAAVRDKRLDLNQEISVSVNAWKVDPSSSKMFIEPNKPVSVNNLLYGLISV 117
            KLMTAYLAFAA+RDKRL L QE+SVSVNAWKVDPSSSKMFIEPNKPVS++NLLYGLISV
Sbjct: 61  TKLMTAYLAFAALRDKRLSLEQEVSVSVNAWKVDPSSSKMFIEPNKPVSIDNLLYGLISV 120

Query: 118 SGNDAAVALSEAVSGTTDAFVVLMNREAQRQGLTGTHFSNPHGLPSPDTYTTARDLAILC 177
           SGNDAAVA++EAVSGT DAFV LMNREAQRQGLT THFSNPHGLPSPDTYTTARDL+ILC
Sbjct: 121 SGNDAAVAVAEAVSGTEDAFVQLMNREAQRQGLTNTHFSNPHGLPSPDTYTTARDLSILC 180

Query: 178 RNLINDFPDFYKIYYSVKKFTYNNITQPNRNRLLWLDPTVDGMKTGHTDSAGYSLITSAK 237
           RNLINDFP++YK YYSVKKFTYNNITQPNRNRLLWLDPTVDGMKTGHT SAGYSLITSA 
Sbjct: 181 RNLINDFPEYYKRYYSVKKFTYNNITQPNRNRLLWLDPTVDGMKTGHTSSAGYSLITSAH 240

Query: 238 RPVANGERRLISVVIGTVSDQVRTQESQKLLNWGFQNFDAVKLYSKGQAVDTPDVWKGSQ 297
           RPV NGERRLISVVIGTVSDQVRTQESQKLLNWGFQNFDAVKLY+KGQ VDTPDVWKGSQ
Sbjct: 241 RPVPNGERRLISVVIGTVSDQVRTQESQKLLNWGFQNFDAVKLYAKGQPVDTPDVWKGSQ 300

Query: 298 GKIKIGFMRDVYVTVPKGTADKIKPRVERNDPLIAPISENAKVGTLKIMIDDKAVTELPL 357
           GKIK+GF  DVY+T+PKGTADK+K +++RNDPLIAPI+E AKVGTLK+ IDDK VTELP+
Sbjct: 301 GKIKVGFKNDVYITIPKGTADKVKTKLDRNDPLIAPIAEGAKVGTLKVTIDDKTVTELPV 360

Query: 358 VALESVGPAGIFGRAWDSLRLLFK 381
           VALESVGPAG  GRAWDSLRL+FK
Sbjct: 361 VALESVGPAGFIGRAWDSLRLMFK 384


>gi|300313783|ref|YP_003777875.1| D-alanyl-D-alanine
           carboxypeptidase [Herbaspirillum seropedicae SmR1]
          Length = 385

 Score = 58.9 bits (141), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 66/245 (26%), Positives = 113/245 (46%), Gaps = 21/245 (8%)

Query: 34  LLDASSNQIIASQEADTRVEPASLVKLMTAYLAFAAVRDKRLDLNQEISVSVNAW-KVDP 92
           +LD  +   +  + ADT    AS+ KLMTA +       K+L +   + V+ +    +  
Sbjct: 148 VLDEQTGTPLFERNADTVAPIASVTKLMTAIVWLD---QKQLAMGNRLEVTEDDLDTLKF 204

Query: 93  SSSKMFIEPNKPVSVNNLLYGLISVSGNDAAVALSEAVSGTTDAFVVLMNREAQRQGLTG 152
           + S++ +     +S  ++L+  +  S N AA ALS    G   AF+  MN  AQ  G++ 
Sbjct: 205 THSRLGV--GASLSRADMLHIALMSSENRAAAALSRDYPGGRPAFIAAMNARAQALGMSH 262

Query: 153 THFSNPHGLPSPDTYTTARDLAILCR-----NLI-NDFPDFYKIYYSVKKFTYNNITQPN 206
           THF N  GL SP+  +T R+LA L +      LI ND  D  K+           +   N
Sbjct: 263 THFENATGL-SPENVSTPRELAALVQAANRYQLIRNDSLDKQKMI----NIGRGQLQYIN 317

Query: 207 RNRLL-WLDPTVDGMKTGHTDSAGYSLITSAKRPVANGERRLISVVIGTVSDQVRTQESQ 265
            NRL+ +        KTG  + +G++++    R + +  R +I  ++G+ S      +  
Sbjct: 318 SNRLIRYGQVNASVQKTGFINESGHNMVL---RMLVHDRRPVIVTMLGSGSADGSRLDGV 374

Query: 266 KLLNW 270
           ++  W
Sbjct: 375 RIAKW 379


  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
   0.316    0.132    0.378 

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: 1,139,813
Number of extensions: 44003
Number of successful extensions: 139
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 137
Number of HSP's successfully gapped: 2
Length of query: 381
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 294
Effective length of database: 1,207,925
Effective search space: 355129950
Effective search space used: 355129950
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 (21.6 bits)
S2: 131 (55.1 bits)