RPS-BLAST 2.2.22 [Sep-27-2009]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

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

Query= gi|254780134|ref|YP_003064547.1| phage-related
integrase/recombinase [Candidatus Liberibacter asiaticus str. psy62]
         (348 letters)



>d1a0pa2 d.163.1.1 (A:111-292) Recombinase XerD {Escherichia coli
           [TaxId: 562]}
          Length = 182

 Score = 40.4 bits (93), Expect = 2e-04
 Identities = 26/146 (17%), Positives = 48/146 (32%), Gaps = 14/146 (9%)

Query: 193 RLAFEFLLYSGLRCSDSCRAGVQHLQNNIFSIKTQKTGT-----------IITVELPDGF 241
           +   E L  +GLR S+     +  +      ++    G            +  +E     
Sbjct: 26  KAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLEH 85

Query: 242 MKLLAMTPIGKETFFINNDKQKMNATQFSIWFKAKATKAGVNK---SAHGVRKFSATISA 298
            +   +  +  +  F +   Q+M    F    K  A  AG++    S H +R   AT   
Sbjct: 86  GRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSEKLSPHVLRHAFATHLL 145

Query: 299 DAGATAHELMATYGWKTVDQAETYTK 324
           + GA    +    G   +   + YT 
Sbjct: 146 NHGADLRVVQMLLGHSDLSTTQIYTH 171


>d1aiha_ d.163.1.1 (A:) Integrase {Bacteriophage HP1 [TaxId: 10690]}
          Length = 170

 Score = 34.7 bits (78), Expect = 0.012
 Identities = 22/159 (13%), Positives = 41/159 (25%), Gaps = 11/159 (6%)

Query: 171 IRPWTKEDMQQFKSFWSEGSQP--RLAFEFLLYSGLRCSDSCRAGVQHLQNNIFSIKTQK 228
           +    + D+ +  +       P   L     L +G R S++       +     +    K
Sbjct: 4   LAFLYERDIYRLLAECDNSRNPDLGLIVRICLATGARWSEAETLTQSQVMPYKITFTNTK 63

Query: 229 TGTIITVELPDGFMKLLAMTPIGKETFFINNDKQKMNATQFSIWFKAKATKAGVNKSAHG 288
           +    TV + D    +L                       F         +    +  H 
Sbjct: 64  SKKNRTVPISDELFDML---------PKKRGRLFNDAYESFENAVLRAEIELPKGQLTHV 114

Query: 289 VRKFSATISADAGATAHELMATYGWKTVDQAETYTKGAD 327
           +R   A+     G     L    G  T++    Y   A 
Sbjct: 115 LRHTFASHFMMNGGNILVLKEILGHSTIEMTMRYAHFAP 153


>d1ae9a_ d.163.1.1 (A:) Integrase (Int) {Bacteriophage lambda
           [TaxId: 10710]}
          Length = 179

 Score = 33.7 bits (75), Expect = 0.020
 Identities = 24/164 (14%), Positives = 53/164 (32%), Gaps = 14/164 (8%)

Query: 175 TKEDMQQ-FKSFWSEGSQPRLAFEFLLYSGLRCSDSCRAGVQHLQNNIFSIKTQKTGTII 233
           T ++  + +++  S     RLA E  + +G R  D C      + +    ++  KTG  I
Sbjct: 5   TADEYLKIYQAAESSPCWLRLAMELAVVTGQRVGDLCEMKWSDIVDGYLYVEQSKTGVKI 64

Query: 234 TVELPDGFMKLLAMT---------PIGKETFFINNDKQKMNATQFSIWFKAKATKAG--- 281
            +        L              +G ET   +  ++ +++   S +F      +G   
Sbjct: 65  AIPTALHIDALGISMKETLDKCKEILGGETIIASTRREPLSSGTVSRYFMRARKASGLSF 124

Query: 282 -VNKSAHGVRKFSATISADAGATAHELMATYGWKTVDQAETYTK 324
             +       +  +    +   +        G K+   A  +  
Sbjct: 125 EGDPPTFHELRSLSARLYEKQISDKFAQHLLGHKSDTMASQFRD 168


>d1a0pa1 a.60.9.1 (A:3-100) Recombinase XerD {Escherichia coli
           [TaxId: 562]}
          Length = 98

 Score = 33.6 bits (76), Expect = 0.029
 Identities = 7/36 (19%), Positives = 21/36 (58%)

Query: 126 RKHTPSSAIQFLTSMRVLFKWAVRQEYVAINPCLSV 161
             +  +S+ + L+++R LF++  R+++   +P   +
Sbjct: 63  GGYKATSSARLLSAVRRLFQYLYREKFREDDPSAHL 98


>d1f44a2 d.163.1.1 (A:130-343) Cre recombinase {Bacteriophage P1
           [TaxId: 10678]}
          Length = 214

 Score = 31.8 bits (70), Expect = 0.083
 Identities = 24/207 (11%), Positives = 47/207 (22%), Gaps = 43/207 (20%)

Query: 163 RPKRKTEGIRPWTKEDMQQFKSFWSEGSQP-----RLAFEFLLYSGLRCSDSCRAGVQHL 217
           R K+       + + D  Q +S      +               + LR ++  R  V+ +
Sbjct: 1   RAKQA----LAFERTDFDQVRSLMENSDRCQDIRNLAFLGIAYNTLLRIAEIARIRVKDI 56

Query: 218 QNNIFSIKTQK----------------------------------TGTIITVELPDGFMK 243
                                                                       
Sbjct: 57  SRTDGGRMLIHIGRTKTLVSTAGVEKALSLGVTKLVERWISVSGVADDPNNYLFCRVRKN 116

Query: 244 LLAMTPIGKETFFINNDKQKMNATQFSIWFKAKATKAGVNKSAHGVRKFSATISADAGAT 303
            +A      +      +       +     K  + +  +  S H  R  +A   A AG +
Sbjct: 117 GVAAPSATSQLSTRALEGIFEATHRLIYGAKDDSGQRYLAWSGHSARVGAARDMARAGVS 176

Query: 304 AHELMATYGWKTVDQAETYTKGADRIR 330
             E+M   GW  V+    + +  D   
Sbjct: 177 IPEIMQAGGWTNVNIVMNFIRNLDSET 203


>d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces cerevisiae)
            [TaxId: 4932]}
          Length = 1449

 Score = 26.7 bits (58), Expect = 2.8
 Identities = 9/52 (17%), Positives = 16/52 (30%), Gaps = 7/52 (13%)

Query: 100  DQIIRKSGDFDYRKITTKHIRSGVESRKHTPSSAIQFLTSMRVLFKWAVRQE 151
            D +  + G      +T    R G             F  ++ +LF+     E
Sbjct: 1372 DVMTTQGG---LTSVT----RHGFNRSNTGALMRCSFEETVEILFEAGASAE 1416


  Database: scop70_1_75
    Posted date:  Mar 27, 2010  6:21 PM
  Number of letters in database: 2,407,596
  Number of sequences in database:  13,730
  
Lambda     K      H
   0.320    0.132    0.399 

Gapped
Lambda     K      H
   0.267   0.0643    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,278,141
Number of extensions: 57551
Number of successful extensions: 153
Number of sequences better than 10.0: 1
Number of HSP's gapped: 152
Number of HSP's successfully gapped: 10
Length of query: 348
Length of database: 2,407,596
Length adjustment: 86
Effective length of query: 262
Effective length of database: 1,226,816
Effective search space: 321425792
Effective search space used: 321425792
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 (24.4 bits)