RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

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

Query= 537021.9.peg.1079_1
         (251 letters)



>2wbn_A G2P, terminase large subunit; large terminase, nuclease,
           viral protein, DNA packaging; 1.90A {Bacillus phage
           SPP1} PDB: 2wc9_A (A:)
          Length = 212

 Score = 79.6 bits (196), Expect = 4e-16
 Identities = 20/158 (12%), Positives = 44/158 (27%), Gaps = 15/158 (9%)

Query: 96  LHEREARTKGEPILGSGRIFP-IVEEDIVINSLDIPEHWVQIGGMDFGW-HHPFAAGHLV 153
                 R     +      F  +  E+ +I   ++        G+DFG+   P A     
Sbjct: 11  SSGLVPRGSHXALGSGVVPFENLQIEEGIITDAEVARFDNIRQGLDFGYGPDPLAFVRWH 70

Query: 154 WNRDSDVIYVVKNYRCREQTPIFHVAALKSWGKWLPWAWPHDGLQHDKRSGEQLSAQYRR 213
           +++  + IY +      + +       ++         +    +  D      + A    
Sbjct: 71  YDKRKNRIYAIDELVDHKVSLKRTADFVRKNK------YESARIIADSSEPRSIDALKLE 124

Query: 214 QGMKMLPECATFDDGSNGVEAGISDMLDRMRSGRWKVF 251
            G+  +        G + VE G       +      V 
Sbjct: 125 HGINRIEGA---KKGPDSVEHGE----RWLDELDAIVI 155


>3cpe_A Terminase, DNA packaging protein GP17; large terminase,
           alternative initiation, ATP-binding, DNA- binding,
           hydrolase, nuclease; HET: DNA; 2.80A {Bacteriophage T4}
           PDB: 3ezk_A* (A:384-592)
          Length = 209

 Score = 32.5 bits (73), Expect = 0.066
 Identities = 11/152 (7%), Positives = 29/152 (19%), Gaps = 7/152 (4%)

Query: 106 EPILGSGRIFPIVEEDIVINSL----DIPEHWVQIGGMDFGWH-HPFAAGHLVWNRDSDV 160
                   +   +E     +              I  +D             + +   DV
Sbjct: 5   LISGMKLAVMDFIEVTPDDHGFHQFKKPEPDRKYIATLDCSEGRGQDYHALHIIDVTDDV 64

Query: 161 IYVVKNYRCREQTPIFHVAALKSWGKWLPWA-WPHDGLQHDKRSGEQLSAQYRRQGMKML 219
              V        + +     +  +           +         + L      +G+   
Sbjct: 65  WEQVGVLHSNTISHLILPDIVMRYLVEYNECPVYIELNSTGVSVAKSLYMDLEYEGVICD 124

Query: 220 PECA-TFDDGSNGVEAGISDMLDRMRSGRWKV 250
                           G S + D +   +  +
Sbjct: 125 SYTDLGMKQTKRTKAVGCSTLKDLIEKDKLII 156


>2bvl_A Toxin B; glycosyltransferase; HET: GLC UDP TBR; 2.2A
          {Clostridium difficile} (A:91-135,A:236-392)
          Length = 202

 Score = 25.8 bits (56), Expect = 6.0
 Identities = 3/15 (20%), Positives = 7/15 (46%)

Query: 15 TVHYVWFDEEPPEDV 29
           +H+VW   +  +  
Sbjct: 7  NLHFVWIGGQINDTA 21


>1f6k_A N-acetylneuraminate lyase; beta barrel; 1.60A {Haemophilus
          influenzae} (A:)
          Length = 293

 Score = 25.5 bits (55), Expect = 6.6
 Identities = 10/60 (16%), Positives = 19/60 (31%), Gaps = 8/60 (13%)

Query: 41 QGLVTLTLTPLKGRSPI--------IEHYLSASSSDRQVIRMTINETPHYNEQERKRIID 92
          +G+ +  L        I        I H +     D   +  +  E    + +E+K I  
Sbjct: 5  KGIFSALLVSFNEDGTINEKGLRQIIRHNIDKMKVDGLYVGGSTGENFMLSTEEKKEIFR 64


>2hay_A Putative NAD(P)H-flavin oxidoreductase; alpha-beta
           structure, structural genomics, PSI-2, protein structure
           initiative; HET: MSE FMN; 2.11A {Streptococcus pyogenes
           serotype M1} (A:)
          Length = 224

 Score = 25.4 bits (54), Expect = 7.6
 Identities = 9/55 (16%), Positives = 17/55 (30%)

Query: 111 SGRIFPIVEEDIVINSLDIPEHWVQIGGMDFGWHHPFAAGHLVWNRDSDVIYVVK 165
            G  +  V   +  +++   E       +  G+         V     +V  VVK
Sbjct: 170 EGFHYDKVNHILAKHNVIDLEKEGIASXLSLGYRLRDPKHAQVRKPKEEVXSVVK 224


>2fjr_A Repressor protein CI; genetic switch, regulation,
           cooperativity, transcription regulator; 1.95A
           {Enterobacteria phage 186} PDB: 2fkd_A (A:71-189)
          Length = 119

 Score = 25.3 bits (55), Expect = 8.3
 Identities = 3/34 (8%), Positives = 7/34 (20%)

Query: 116 PIVEEDIVINSLDIPEHWVQIGGMDFGWHHPFAA 149
             V      ++  I    +    +         A
Sbjct: 2   AFVNNRESSDAKRIEGFTLSEEILKSDKQLSVDA 35


>3k50_A Putative S41 protease; structural genomics, joint center
          for structural genomics, JCSG, protein structure
          initiative, PSI-2; 2.00A {Bacteroides fragilis nctc
          9343} (A:1-70,A:172-403)
          Length = 302

 Score = 25.1 bits (54), Expect = 9.4
 Identities = 8/28 (28%), Positives = 11/28 (39%), Gaps = 2/28 (7%)

Query: 3  AYEQGRDKW--QSNTVHYVWFDEEPPED 28
            E GRD W        Y+W+ + P   
Sbjct: 10 YPETGRDIWIDSVXRQEYLWYRDXPSPA 37


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
          acyl-carrier-protein, beta-ketoacyl reductase,
          beta-ketoacyl synthase, dehydratase; 4.00A
          {Saccharomyces cerevisiae} (B:1772-1800,B:1916-2006)
          Length = 120

 Score = 25.1 bits (55), Expect = 9.8
 Identities = 5/21 (23%), Positives = 8/21 (38%), Gaps = 4/21 (19%)

Query: 25 PPED----VYFEGLTRINATQ 41
            E     V++ G+T   A  
Sbjct: 7  SIESLVEVVFYRGMTMQVAVP 27


  Database: mmdb70
    Posted date:  Jun 20, 2010  3:12 AM
  Number of letters in database: 4,956,049
  Number of sequences in database:  33,805
  
Lambda     K      H
   0.319    0.137    0.444 

Gapped
Lambda     K      H
   0.267   0.0478    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 2,203,799
Number of extensions: 102080
Number of successful extensions: 262
Number of sequences better than 10.0: 1
Number of HSP's gapped: 261
Number of HSP's successfully gapped: 33
Length of query: 251
Length of database: 4,956,049
Length adjustment: 86
Effective length of query: 165
Effective length of database: 2,048,819
Effective search space: 338055135
Effective search space used: 338055135
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.8 bits)