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= 0235.0002.p
         (173 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

C3HS77.1 C3HS77_BACTU Glutamate racemase                               70   6e-11
C3FBA6.1 C3FBA6_BACTU Glutamate racemase                               70   6e-11
Q216S7.1 Q216S7_RHOPB Amino acid adenylation                           70   6e-11
C3H9Z8.1 C3H9Z8_BACTU Glutamate racemase                               69   1e-10
C2NB23.1 C2NB23_BACCE Glutamate racemase                               69   1e-10

>C3HS77.1 C3HS77_BACTU Glutamate racemase
          Length = 2431

 Score = 70.1 bits (170), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 34/79 (43%), Positives = 46/79 (58%)

Query: 30  EYWHNLIGNGTHALNMPLDYVRPAARSFAGEVVMLRTSGELACRLERLAEREAVSAETAL 89
           +YW N+       LNMP DY RP  RSFAG+ + L+ + E   +L +LA    V+    +
Sbjct: 55  KYWMNVFNEEVPVLNMPTDYKRPKRRSFAGDRINLKINSETYNQLNKLATENEVTLYMLM 114

Query: 90  LACYILLLSKYTGQDTVCV 108
           LA Y  LLSKYTGQ+ + V
Sbjct: 115 LAGYTTLLSKYTGQEDIVV 133


>C3FBA6.1 C3FBA6_BACTU Glutamate racemase
          Length = 2431

 Score = 70.1 bits (170), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 34/79 (43%), Positives = 46/79 (58%)

Query: 30  EYWHNLIGNGTHALNMPLDYVRPAARSFAGEVVMLRTSGELACRLERLAEREAVSAETAL 89
           +YW N+       LNMP DY RP  RSFAG+ + L+ + E   +L +LA    V+    +
Sbjct: 55  KYWMNVFNEEVPVLNMPTDYKRPKRRSFAGDRINLKINSETYNQLNKLATENEVTLYMLM 114

Query: 90  LACYILLLSKYTGQDTVCV 108
           LA Y  LLSKYTGQ+ + V
Sbjct: 115 LAGYTTLLSKYTGQEDIVV 133


>Q216S7.1 Q216S7_RHOPB Amino acid adenylation
          Length = 3102

 Score = 70.1 bits (170), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 46/129 (35%), Positives = 60/129 (46%), Gaps = 18/129 (13%)

Query: 31  YWHNLIGNGTHALNMPLDYVRPAARSFAGEVVMLRTSGELACRLERLAEREAVSAETALL 90
           YW  L+     ALN+P D+ RP+ +SF G+ V LR +  L   L  LA R  VS    LL
Sbjct: 189 YWLRLLEGERPALNLPTDFPRPSTQSFDGDRVTLRPNQRLTAALRELAARHRVSMYMLLL 248

Query: 91  ACYILLLSKYTGQDTVCVXXXRMGLRSGSAVRLGRGRRPQRSGGTSELGCNLAGICK--- 147
           A Y ++LSKYTGQD + V              L  GR  +R  G   L  N   +     
Sbjct: 249 ATYYVVLSKYTGQDDLVVGT------------LAAGRNAERFRGVVGLFVNTLALRSRPR 296

Query: 148 ---SYSSYL 153
              ++S YL
Sbjct: 297 GELAFSDYL 305



 Score = 62.8 bits (151), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 35/93 (37%), Positives = 46/93 (49%)

Query: 31   YWHNLIGNGTHALNMPLDYVRPAARSFAGEVVMLRTSGELACRLERLAEREAVSAETALL 90
            YW  +   G  AL +P D+ R A RSF G++V       LA RL  +      +    LL
Sbjct: 1228 YWRAVFEGGAPALALPTDFPRGAIRSFDGDLVRFTIDAALAERLRVIGRAAGATPFMTLL 1287

Query: 91   ACYILLLSKYTGQDTVCVXXXRMGLRSGSAVRL 123
            A Y +LLSKYTGQ+ + V     G R  S  R+
Sbjct: 1288 AAYTVLLSKYTGQEDIVVGIPVAGRRMASLQRV 1320


>C3H9Z8.1 C3H9Z8_BACTU Glutamate racemase
          Length = 5273

 Score = 69.3 bits (168), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 33/79 (41%), Positives = 46/79 (58%)

Query: 30   EYWHNLIGNGTHALNMPLDYVRPAARSFAGEVVMLRTSGELACRLERLAEREAVSAETAL 89
            +YW N+       LNMP DY RP  RSFAG+ + L+ + E   +L +LA    V+    +
Sbjct: 2897 KYWMNVFNEEVPVLNMPTDYKRPKRRSFAGDRINLKINSETYNQLNKLATENEVTMYMLM 2956

Query: 90   LACYILLLSKYTGQDTVCV 108
            LA Y  LLSKY+GQ+ + V
Sbjct: 2957 LAGYTTLLSKYSGQEDIVV 2975


>C2NB23.1 C2NB23_BACCE Glutamate racemase
          Length = 2431

 Score = 69.3 bits (168), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 33/79 (41%), Positives = 46/79 (58%)

Query: 30  EYWHNLIGNGTHALNMPLDYVRPAARSFAGEVVMLRTSGELACRLERLAEREAVSAETAL 89
           +YW N+       LNMP DY RP  RSFAG+ + L+ + E   +L +LA    V+    +
Sbjct: 55  KYWMNVFNEEVPVLNMPTDYKRPKRRSFAGDRINLKINSETYNQLNKLATENEVTMYMLM 114

Query: 90  LACYILLLSKYTGQDTVCV 108
           LA Y  LLSKY+GQ+ + V
Sbjct: 115 LAGYTTLLSKYSGQEDIVV 133


  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
   0.316    0.133    0.402 

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: 1,042,984,844
Number of extensions: 40953608
Number of successful extensions: 73701
Number of sequences better than 1.0e-05: 155
Number of HSP's gapped: 73736
Number of HSP's successfully gapped: 198
Length of query: 173
Length of database: 3,060,696,203
Length adjustment: 126
Effective length of query: 47
Effective length of database: 1,873,648,313
Effective search space: 88061470711
Effective search space used: 88061470711
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: 126 (53.1 bits)