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= 0543.0009.p
         (223 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

dbj|BAA90649.1| CwlV [Paenibacillus polymyxa]                         114   1e-24
dbj|BAA90648.1| CwlU [Paenibacillus polymyxa]                         102   5e-21
ref|ZP_00060580.1| hypothetical protein [Clostridium thermocellu...    76   7e-13
ref|ZP_00059658.1| hypothetical protein [Clostridium thermocellu...    74   2e-12
ref|ZP_00059775.1| COG0860: N-acetylmuramoyl-L-alanine amidase [...    74   2e-12

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

 Score =  114 bits (286), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 47/112 (41%), Positives = 80/112 (71%)

Query: 24  RIVMDNRELEIPKGITLENVNGSVMIPIRVVVENLGFEVLWEQKSRKVTVQQDGKSVQLA 83
           +I +D+++L +P G   + + GS M+P+RV+ ENLG++V W+Q++R +T+++D  S+++ 
Sbjct: 29  QIYLDDQQLSVPSGAKAQVIGGSTMVPLRVISENLGYDVTWKQQARTITIEKDSTSIRMI 88

Query: 84  VGSKTADADGVTLALNAAPKQTGGTVLVPIRFVSEQFGLKVGWDNSDKTVYL 135
           +GSKTA  +G  ++L+A+P       LVP+RF+ EQ GL V WD+S K+V L
Sbjct: 89  IGSKTATVNGSDISLDASPLLRSNYALVPLRFIGEQMGLDVKWDSSSKSVKL 140


>dbj|BAA90648.1| CwlU [Paenibacillus polymyxa]
          Length = 524

 Score =  102 bits (255), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 45/111 (40%), Positives = 74/111 (66%)

Query: 25  IVMDNRELEIPKGITLENVNGSVMIPIRVVVENLGFEVLWEQKSRKVTVQQDGKSVQLAV 84
           + +D + +E P     E VNG VM+P+RVV E LG++  WE ++ K+++Q++   + + V
Sbjct: 30  LFLDGKRVEAPADAKPEMVNGKVMVPLRVVGEQLGYQFKWEPQAYKISIQKNSTDMSMYV 89

Query: 85  GSKTADADGVTLALNAAPKQTGGTVLVPIRFVSEQFGLKVGWDNSDKTVYL 135
           G  +AD +G T++L+A P   G + ++P+RFV EQ GLKV W+N +K+V L
Sbjct: 90  GRTSADVNGKTVSLDAPPVLRGSSTMIPLRFVGEQMGLKVDWNNQNKSVNL 140


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

 Score = 75.9 bits (185), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 36/90 (40%), Positives = 51/90 (56%)

Query: 44  NGSVMIPIRVVVENLGFEVLWEQKSRKVTVQQDGKSVQLAVGSKTADADGVTLALNAAPK 103
           N   M+PIR + E L  +V W +K R V +++ G  + L VG KTA  +G  + L+ +  
Sbjct: 48  NSRTMVPIRFISEALDAKVDWIEKERMVVIKKQGTEISLVVGMKTAKVNGKEIKLDTSSV 107

Query: 104 QTGGTVLVPIRFVSEQFGLKVGWDNSDKTV 133
             GG   VP+RF+SE FG  V WD  +K V
Sbjct: 108 IAGGRTFVPVRFISEAFGATVEWDGKNKIV 137


>ref|ZP_00059658.1| hypothetical protein [Clostridium thermocellum ATCC 27405]
          Length = 276

 Score = 74.3 bits (181), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 33/90 (36%), Positives = 54/90 (60%)

Query: 44  NGSVMIPIRVVVENLGFEVLWEQKSRKVTVQQDGKSVQLAVGSKTADADGVTLALNAAPK 103
           NG  ++P+R + E +   V W+ K++ VT ++   ++ + +G+KT   +GV + L+  P+
Sbjct: 181 NGRTLVPLRAIFEAMNATVSWDDKTKTVTAKKGDTTIVMTIGNKTMKKNGVAIELDVPPQ 240

Query: 104 QTGGTVLVPIRFVSEQFGLKVGWDNSDKTV 133
              G  LVP R V+E FG KV WD S +TV
Sbjct: 241 IVNGRTLVPARAVAESFGAKVDWDGSTRTV 270


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

 Score = 73.9 bits (180), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 32/89 (35%), Positives = 54/89 (60%), Gaps = 1/89 (1%)

Query: 43  VNGSVMIPIRVVVENLGFEVLWEQKSRKVTVQQDGKSVQLAVGSKTADADGVTLALNAAP 102
           +NG  ++P+R + E LG +V W+  S+KVT+  D  +++L +    A  +G  +A+    
Sbjct: 92  INGRSLVPVRAIFEKLGAKVGWDAASKKVTISYDSNTIELKINDVNALVNGTKVAMEVPA 151

Query: 103 KQTGGTVLVPIRFVSEQFGLKVGWDNSDK 131
           K      +VP+RFV EQ G++VGW N++K
Sbjct: 152 KIINDRTVVPVRFVGEQLGMEVGW-NAEK 179


  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
   0.315    0.135    0.405 

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: 279,841,171
Number of extensions: 10315835
Number of successful extensions: 21479
Number of sequences better than 1.0e-05: 25
Number of HSP's gapped: 21468
Number of HSP's successfully gapped: 25
Length of query: 223
Length of database: 757,237,578
Length adjustment: 121
Effective length of query: 102
Effective length of database: 428,710,599
Effective search space: 43728481098
Effective search space used: 43728481098
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: 42 (22.0 bits)
S2: 123 (52.0 bits)