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= 0476.0006.p
         (177 letters)

Database: pfamseq 
           9,421,015 sequences; 3,060,696,203 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B1DG24.1 B1DG24_9BACL Penicillin-binding protein, 1A family           137   4e-31
B3K6T0.1 B3K6T0_9BACI Penicillin-binding protein, 1A family           135   2e-30
C0ZI00.1 C0ZI00_BREBN Penicillin binding protein                       57   5e-07

>B1DG24.1 B1DG24_9BACL Penicillin-binding protein, 1A family
          Length = 860

 Score =  137 bits (345), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 76/180 (42%), Positives = 109/180 (60%), Gaps = 14/180 (7%)

Query: 1   MGYDKPNKKHLLKNSSPLAAAFWGKVMEEALEGVPKKSFPQPEGTNQXXXXXXXXXXXXV 60
           MGYDK +K+H++K SS  AAA +GKVM++A++ VPK SF QPEG  Q            V
Sbjct: 603 MGYDKTDKQHVIKKSSSQAAAMFGKVMKQAMKNVPKSSFKQPEGIKQEVKEQAP-----V 657

Query: 61  SGLNAAYDASTMTVNLSW-EPASAKGVEYRIYRRETSEAEFSPLLNTVSANVGDISAMPG 119
           +  NA +      V LSW  P ++KGV YR+YR+++ +++FS  ++  +  V D++  PG
Sbjct: 658 TNFNAVFLEDQAKVQLSWTAPENSKGVTYRVYRKDSEQSQFSVFVDVANPTVDDMTVFPG 717

Query: 120 LTYEYYVTAYYPALDVESEPSATVTVEVQD------EQPTQEPEPTVDPNLPTDGTGNGG 173
           + Y+YYV AY    D ES+PS T+T++V +      EQP  EP+   D  LP DG  NGG
Sbjct: 718 MKYQYYVVAYNSEEDKESKPSETITIDVPETEVDIPEQP-MEPDQPSDGELPGDGN-NGG 775


>B3K6T0.1 B3K6T0_9BACI Penicillin-binding protein, 1A family
          Length = 893

 Score =  135 bits (339), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 73/160 (45%), Positives = 105/160 (65%), Gaps = 6/160 (3%)

Query: 1   MGYDKPNKKHLLKNSSPLAAAFWGKVMEEALEGVPKKSFPQPEGTNQXXXXXXXXXXXXV 60
           MGYD P+++HLLK SS ++A+ WGKVME+A++G   K+FP  E                V
Sbjct: 606 MGYDNPDRQHLLKRSSSISASLWGKVMEKAVQGYEAKNFPNVEPVQ---PPVEEPALSAV 662

Query: 61  SGLNAAYDASTMTVNLSWEPASAKGVEYRIYRRETSEAEFSPLLNTVSA-NVGDISAMPG 119
           SGL  +Y+  T TV+LSW P     V+YRIYR+ETSE+E++ +L+++   ++ D+SAM G
Sbjct: 663 SGLTGSYNGETQTVSLSWNPVQGN-VQYRIYRKETSESEYTRILDSLGGTSIEDMSAMEG 721

Query: 120 LTYEYYVTAYYPALDVESEPSATV-TVEVQDEQPTQEPEP 158
           LTY+YYVTA+ P+   ESEPS  +  V V +E P ++ EP
Sbjct: 722 LTYDYYVTAFDPSTGDESEPSNILQIVAVSEELPPEDLEP 761


>C0ZI00.1 C0ZI00_BREBN Penicillin binding protein
          Length = 838

 Score = 57.4 bits (137), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 54/183 (29%), Positives = 80/183 (43%), Gaps = 20/183 (10%)

Query: 1   MGYDKPNKKHLLKNSSPLAAAFWGKVMEEALEGVPKKSFPQPEGTNQXXXXXXXXXXXXV 60
           MG+D  +K+HL+   S + A  + KVM  AL+GVP   F +PEG  Q             
Sbjct: 593 MGFDPEDKQHLMHQGSSMTAQMFSKVMGTALKGVPSSDFVRPEGAVQHKQEEVEPEIQLA 652

Query: 61  SGLNAAYDASTMTVNLSWEPASAKGVEYRIYR-RETSEAEFSPLLNTVSANVGDISAMPG 119
           + +    + + + V LSW   S  G  Y +YR  E+ E +       +SA + + S +  
Sbjct: 653 ADMTLDTNTNKLMVVLSWIGGS-DGDTYDLYRISESGERKL------ISAGMKETSYVDV 705

Query: 120 L----TYEYYVTAYYPALDVESEPSATVTVE------VQDEQPTQEPEPTVDPNLPTDGT 169
           L     Y+Y V     A   E  PS TV ++      + ++ P    E       P DGT
Sbjct: 706 LDSPKQYQYQVVP-RNAQGEEGTPSKTVPIDSKKLENIINQDPGHNEEGNNQGQNP-DGT 763

Query: 170 GNG 172
           GNG
Sbjct: 764 GNG 766


  Database: pfamseq
    Posted date:  Aug 5, 2010  3:22 PM
  Number of letters in database: 3,060,696,203
  Number of sequences in database:  9,421,015
  
Lambda     K      H
   0.306    0.126    0.364 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 9421015
Number of Hits to DB: 1,074,140,418
Number of extensions: 39154357
Number of successful extensions: 64221
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 64303
Number of HSP's successfully gapped: 3
Length of query: 177
Length of database: 3,060,696,203
Length adjustment: 127
Effective length of query: 50
Effective length of database: 1,864,227,298
Effective search space: 93211364900
Effective search space used: 93211364900
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 126 (53.1 bits)