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= 0002.0607.p
         (190 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310721|ref|YP_003774813.1| penicillin-binding 1 (peptidogl...   196   1e-51
gi|300313465|ref|YP_003777557.1| penicillin-binding 1 (peptidogl...   105   2e-24

>gi|300310721|ref|YP_003774813.1| penicillin-binding 1
           (peptidoglycan synthetase) transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 822

 Score =  196 bits (497), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 99/136 (72%), Positives = 105/136 (77%), Gaps = 14/136 (10%)

Query: 47  LAGKTGTTNDAFDGWFAGYQRTLATVVWMGYDQPKSLGSKEFGAQLALPIWVDYMGVALR 106
           LAGKTGTTNDA DGWFAGYQRTLATVVWMGYDQPKSLGSKEFGAQLALPIWVDYM  AL+
Sbjct: 668 LAGKTGTTNDAVDGWFAGYQRTLATVVWMGYDQPKSLGSKEFGAQLALPIWVDYMAKALK 727

Query: 107 GTPQSDTPAPAGIRFIDGEPYYENFTPGNGFVASLGVDGGGVVDALSNFFGWSKNPNSET 166
           G PQ D P P GIRFIDGEPYY+NFTP NG V ++GV    VVDA+SNFFGW+       
Sbjct: 728 GVPQFDLPVPEGIRFIDGEPYYDNFTPNNGLVTNVGVT---VVDAISNFFGWT------- 777

Query: 167 QAAPSSGPA-PSSQAP 181
              PS  PA P S  P
Sbjct: 778 ---PSQAPATPGSTQP 790



 Score = 82.8 bits (203), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 38/47 (80%), Positives = 43/47 (91%)

Query: 1   VSYPAGNGQPNWEPKDDDPPAGPMAMRTALQKSVNLVAIRTLDAIGL 47
           VSYPAG GQPNWEP+DD+ PAGP+ +RTALQKSVNLVAIRTLD IG+
Sbjct: 508 VSYPAGPGQPNWEPRDDETPAGPITVRTALQKSVNLVAIRTLDYIGV 554


>gi|300313465|ref|YP_003777557.1| penicillin-binding 1
           (peptidoglycan synthetase) transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 771

 Score =  105 bits (263), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 54/107 (50%), Positives = 65/107 (60%), Gaps = 1/107 (0%)

Query: 37  VAIRTLDAIGLAGKTGTTNDAFDGWFAGYQRTLATVVWMGYDQPKSLGSKEFGAQLALPI 96
           V   +L    LAGKTGTTND+ D WFAGYQ  L  + W+GYDQPKSLG +E G  LALP+
Sbjct: 644 VKALSLKRTDLAGKTGTTNDSMDAWFAGYQPGLTAIAWIGYDQPKSLGDRETGGGLALPV 703

Query: 97  WVDYMGVALRGTPQSDTPAPAGIRFIDGEPYYENFTPGNGFVASLGV 143
           W+ YM  AL+  P  D   P G+    GE YY  F P +  V  LG+
Sbjct: 704 WISYMSKALKDVPNVDRKVPDGLIESGGEYYYAEFPP-SAMVRDLGM 749


  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
   0.314    0.134    0.423 

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: 614,857
Number of extensions: 25807
Number of successful extensions: 63
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 63
Number of HSP's successfully gapped: 3
Length of query: 190
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 110
Effective length of database: 1,241,070
Effective search space: 136517700
Effective search space used: 136517700
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 128 (53.9 bits)