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= 0350.0059.p
         (208 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF 
           2,715,099 sequences; 757,237,578 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|ZP_00059775.1| COG0860: N-acetylmuramoyl-L-alanine amidase [...    89   5e-17
ref|ZP_00060319.1| COG3773: Cell wall hydrolyses involved in spo...    85   1e-15
dbj|BAA90649.1| CwlV [Paenibacillus polymyxa]                          84   3e-15
ref|ZP_00060580.1| hypothetical protein [Clostridium thermocellu...    80   2e-14
ref|ZP_00060122.1| hypothetical protein [Clostridium thermocellu...    80   4e-14

>ref|ZP_00059775.1| COG0860: N-acetylmuramoyl-L-alanine amidase [Clostridium
           thermocellum ATCC 27405]
          Length = 980

 Score = 89.4 bits (220), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 48/119 (40%), Positives = 71/119 (59%), Gaps = 1/119 (0%)

Query: 12  TIELDGVTLNSEVPPFITASGVTMVPVGVISKGLGAAVEWNQSNKTATISKGENVLKLTS 71
           T+++DG  +NS++PP I  +G ++VPV  I + LGA V W+ ++K  TIS   N ++L  
Sbjct: 75  TLKVDGEVVNSDLPPIII-NGRSLVPVRAIFEKLGAKVGWDAASKKVTISYDSNTIELKI 133

Query: 72  GKKTADVGGTPVALDTSVQIVQGRVTVPLRFVSEQLGLQVVWNQATKHIALYSNTEIVG 130
               A V GT VA++   +I+  R  VP+RFV EQLG++V WN     I L S   +V 
Sbjct: 134 NDVNALVNGTKVAMEVPAKIINDRTVVPVRFVGEQLGMEVGWNAEKGEITLDSGKSVVA 192


>ref|ZP_00060319.1| COG3773: Cell wall hydrolyses involved in spore germination
           [Clostridium thermocellum ATCC 27405]
          Length = 282

 Score = 84.7 bits (208), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 45/115 (39%), Positives = 65/115 (56%), Gaps = 1/115 (0%)

Query: 11  ITIELDGVTLNSEVPPFITASGVTMVPVGVISKGLGAAVEWNQSNKTATISKGENVLKLT 70
           IT++++G  +  +  P+I   G T V V  +++ LGA VEW+  +K  TI    N ++L 
Sbjct: 41  ITVKVNGNYIKMDTWPYI-KDGRTFVSVRFVAEALGAKVEWDGEDKKVTIKDDYNYIELF 99

Query: 71  SGKKTADVGGTPVALDTSVQIVQGRVTVPLRFVSEQLGLQVVWNQATKHIALYSN 125
            G K   +     A+DTS +I  GR  VPLRFVSE LG  V WNQ T  +++  N
Sbjct: 100 VGSKECYINAVKQAMDTSPEISNGRTMVPLRFVSEVLGCSVDWNQTTYTVSINKN 154


>dbj|BAA90649.1| CwlV [Paenibacillus polymyxa]
          Length = 499

 Score = 83.6 bits (205), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 40/95 (42%), Positives = 58/95 (61%)

Query: 32  GVTMVPVGVISKGLGAAVEWNQSNKTATISKGENVLKLTSGKKTADVGGTPVALDTSVQI 91
           G TMVP+ VIS+ LG  V W Q  +T TI K    +++  G KTA V G+ ++LD S  +
Sbjct: 50  GSTMVPLRVISENLGYDVTWKQQARTITIEKDSTSIRMIIGSKTATVNGSDISLDASPLL 109

Query: 92  VQGRVTVPLRFVSEQLGLQVVWNQATKHIALYSNT 126
                 VPLRF+ EQ+GL V W+ ++K + LY+ +
Sbjct: 110 RSNYALVPLRFIGEQMGLDVKWDSSSKSVKLYTRS 144


>ref|ZP_00060580.1| hypothetical protein [Clostridium thermocellum ATCC 27405]
          Length = 591

 Score = 80.5 bits (197), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/120 (36%), Positives = 66/120 (55%), Gaps = 1/120 (0%)

Query: 4   VQAAAVPITIELDGVTLN-SEVPPFITASGVTMVPVGVISKGLGAAVEWNQSNKTATISK 62
           +  A+  IT+ ++G  +N ++  PFI ++  TMVP+  IS+ L A V+W +  +   I K
Sbjct: 20  ISHASANITVVVNGEKVNFTDQQPFIDSNSRTMVPIRFISEALDAKVDWIEKERMVVIKK 79

Query: 63  GENVLKLTSGKKTADVGGTPVALDTSVQIVQGRVTVPLRFVSEQLGLQVVWNQATKHIAL 122
               + L  G KTA V G  + LDTS  I  GR  VP+RF+SE  G  V W+   K + +
Sbjct: 80  QGTEISLVVGMKTAKVNGKEIKLDTSSVIAGGRTFVPVRFISEAFGATVEWDGKNKIVTI 139


>ref|ZP_00060122.1| hypothetical protein [Clostridium thermocellum ATCC 27405]
          Length = 265

 Score = 79.7 bits (195), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 45/117 (38%), Positives = 63/117 (53%), Gaps = 1/117 (0%)

Query: 6   AAAVPITIELDGVTLNSEVPPFITASGVTMVPVGVISKGLGAAVEWNQSNKTATISKGEN 65
           A+A  I + L+GV +  +V P+I  +G TMVP   I + LG  + WN  N+T   +    
Sbjct: 41  ASADEIKVFLNGVEIKFDVAPYIK-NGRTMVPFRAIFEALGVDISWNGVNRTILATNDTT 99

Query: 66  VLKLTSGKKTADVGGTPVALDTSVQIVQGRVTVPLRFVSEQLGLQVVWNQATKHIAL 122
            + +  GK  A V G  V LD   +IV GR  VPLRFVSE  G  V W+ A + + +
Sbjct: 100 EIYIEIGKAFAYVNGYKVNLDAEAEIVGGRTFVPLRFVSENAGADVSWDGARRTVYI 156


  Database: All non-redundant GenBank CDS
  translations+PDB+SwissProt+PIR+PRF
    Posted date:  Mar 24, 2004  1:53 AM
  Number of letters in database: 757,237,578
  Number of sequences in database:  2,715,099
  
Lambda     K      H
   0.312    0.129    0.366 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 2715099
Number of Hits to DB: 252,311,178
Number of extensions: 8419021
Number of successful extensions: 16023
Number of sequences better than 1.0e-05: 27
Number of HSP's gapped: 16004
Number of HSP's successfully gapped: 27
Length of query: 208
Length of database: 757,237,578
Length adjustment: 120
Effective length of query: 88
Effective length of database: 431,425,698
Effective search space: 37965461424
Effective search space used: 37965461424
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: 123 (52.0 bits)