RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

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

Query= psy9931
         (237 letters)



>2w7z_A EFSQNR, pentapeptide repeat family protein; glutaraldehyde, gyrase
           inhibitor, cyclic pentylation, chemic modification; HET:
           LP6; 1.60A {Enterococcus faecalis}
          Length = 214

 Score = 33.3 bits (76), Expect = 0.046
 Identities = 20/136 (14%), Positives = 33/136 (24%)

Query: 5   LRSTSFCCVKLSPTSFCCVKLRPTSFCCVKLHPTSFCCVKLRPTSFCCVKLRPTSFCCVK 64
           L +     +      F  + L    F         F         +        +F    
Sbjct: 42  LPNQEVRNLVFRDAVFDHLSLANGQFASFDCSNVRFEACDFSNVEWLSGSFHRVTFLRCN 101

Query: 65  LRPTSFCCVKLCPTSFCCVKLSPTSFCYVKLSPTSFCCVKLRPTSFCWVKLSPTSFCYVK 124
           L  T+F    L    F        SF +   +   F   +L  + F  V           
Sbjct: 102 LTGTNFADSYLXDCLFEDCXADYASFRFANFNLVHFNQTRLVESEFFEVTWXXLLLEACD 161

Query: 125 LRPTSFCCVKLRPTSF 140
           L  +++    L    F
Sbjct: 162 LTESNWLNTSLXGLDF 177



 Score = 33.3 bits (76), Expect = 0.046
 Identities = 22/142 (15%), Positives = 35/142 (24%)

Query: 5   LRSTSFCCVKLSPTSFCCVKLRPTSFCCVKLHPTSFCCVKLRPTSFCCVKLRPTSFCCVK 64
            R   F  + L+   F         F         +        +F    L  T+F    
Sbjct: 52  FRDAVFDHLSLANGQFASFDCSNVRFEACDFSNVEWLSGSFHRVTFLRCNLTGTNFADSY 111

Query: 65  LRPTSFCCVKLCPTSFCCVKLSPTSFCYVKLSPTSFCCVKLRPTSFCWVKLSPTSFCYVK 124
           L    F        SF     +   F   +L  + F  V           L+ +++    
Sbjct: 112 LXDCLFEDCXADYASFRFANFNLVHFNQTRLVESEFFEVTWXXLLLEACDLTESNWLNTS 171

Query: 125 LRPTSFCCVKLRPTSFCCVKLR 146
           L    F        +F    L 
Sbjct: 172 LXGLDFSQNTFERLTFSPNYLS 193



 Score = 31.0 bits (70), Expect = 0.25
 Identities = 17/104 (16%), Positives = 26/104 (25%)

Query: 3   TKLRSTSFCCVKLSPTSFCCVKLRPTSFCCVKLHPTSFCCVKLRPTSFCCVKLRPTSFCC 62
                 +F    L+ T+F    L    F        SF         F   +L  + F  
Sbjct: 90  GSFHRVTFLRCNLTGTNFADSYLXDCLFEDCXADYASFRFANFNLVHFNQTRLVESEFFE 149

Query: 63  VKLRPTSFCCVKLCPTSFCCVKLSPTSFCYVKLSPTSFCCVKLR 106
           V           L  +++    L    F        +F    L 
Sbjct: 150 VTWXXLLLEACDLTESNWLNTSLXGLDFSQNTFERLTFSPNYLS 193



 Score = 27.2 bits (60), Expect = 4.6
 Identities = 19/132 (14%), Positives = 31/132 (23%)

Query: 15  LSPTSFCCVKLRPTSFCCVKLHPTSFCCVKLRPTSFCCVKLRPTSFCCVKLRPTSFCCVK 74
           L    +  + L       +      F  + L    F         F         +    
Sbjct: 32  LENHLYQQIDLPNQEVRNLVFRDAVFDHLSLANGQFASFDCSNVRFEACDFSNVEWLSGS 91

Query: 75  LCPTSFCCVKLSPTSFCYVKLSPTSFCCVKLRPTSFCWVKLSPTSFCYVKLRPTSFCCVK 134
               +F    L+ T+F    L    F        SF +   +   F   +L  + F  V 
Sbjct: 92  FHRVTFLRCNLTGTNFADSYLXDCLFEDCXADYASFRFANFNLVHFNQTRLVESEFFEVT 151

Query: 135 LRPTSFCCVKLR 146
                     L 
Sbjct: 152 WXXLLLEACDLT 163


>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA
           repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A
           {Geobacillus}
          Length = 670

 Score = 26.7 bits (60), Expect = 8.0
 Identities = 6/9 (66%), Positives = 8/9 (88%)

Query: 147 IKCADYVVD 155
           IK ADY++D
Sbjct: 609 IKTADYIID 617


>2ygr_A Uvrabc system protein A; hydrolase, nucleotide excision repair;
           3.40A {Mycobacterium tuberculosis} PDB: 3zqj_A
          Length = 993

 Score = 26.3 bits (59), Expect = 9.7
 Identities = 4/9 (44%), Positives = 8/9 (88%)

Query: 147 IKCADYVVD 155
           IK +D+++D
Sbjct: 929 IKTSDWIID 937


>2r6f_A Excinuclease ABC subunit A; UVRA, nucleotide excision repair, DNA
           repair, ABC ATPase, at cassette, DNA damage, DNA
           excision; HET: ADP; 3.20A {Geobacillus
           stearothermophilus} PDB: 3uwx_A
          Length = 972

 Score = 26.3 bits (59), Expect = 9.8
 Identities = 6/9 (66%), Positives = 8/9 (88%)

Query: 147 IKCADYVVD 155
           IK ADY++D
Sbjct: 911 IKTADYIID 919


  Database: pdb70
    Posted date:  Sep 4, 2012  3:40 AM
  Number of letters in database: 6,701,793
  Number of sequences in database:  27,921
  
Lambda     K      H
   0.336    0.140    0.526 

Gapped
Lambda     K      H
   0.267   0.0540    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,218,570
Number of extensions: 183117
Number of successful extensions: 789
Number of sequences better than 10.0: 1
Number of HSP's gapped: 634
Number of HSP's successfully gapped: 116
Length of query: 237
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 146
Effective length of database: 4,160,982
Effective search space: 607503372
Effective search space used: 607503372
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 56 (25.8 bits)