RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|255764498|ref|YP_003065000.2| site-specific tyrosine
recombinase XerD [Candidatus Liberibacter asiaticus str. psy62]
         (300 letters)



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

 Score =  120 bits (302), Expect = 9e-29
 Identities = 77/189 (40%), Positives = 117/189 (61%), Gaps = 7/189 (3%)

Query: 98  KTLHKDTIANLLEQAKIEAENPAPGQWKRVRIFLLIELLYATGMRVSELVTLSAHTLNLT 157
           K L +  +  LL+   I+       Q   +R   ++E+LYATG+RVSELV L+   ++L 
Sbjct: 1   KDLSEAQVERLLQAPLID-------QPLELRDKAMLEVLYATGLRVSELVGLTMSDISLR 53

Query: 158 ERTMIIQGKGNKERLVILSPSALHALQMYKKTCSSMKMTGNDLWLFPSSTKTGHLSRQVF 217
           +  + + GKGNKERLV L   A++ L+ Y +      + G  + +   S +   ++RQ F
Sbjct: 54  QGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGVSIDVLFPSQRAQQMTRQTF 113

Query: 218 ARDLKALAARAGIQKKNISPHIIRHAFASHLLEGGADLRTIQILLGHTDISTTQIYTHLL 277
              +K  A  AGI  + +SPH++RHAFA+HLL  GADLR +Q+LLGH+D+STTQIYTH+ 
Sbjct: 114 WHRIKHYAVLAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVA 173

Query: 278 PDKLQKLVQ 286
            ++L++L Q
Sbjct: 174 TERLRQLHQ 182


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

 Score = 69.4 bits (168), Expect = 3e-13
 Identities = 35/177 (19%), Positives = 63/177 (35%), Gaps = 24/177 (13%)

Query: 120 APGQWKRVRIFLLIELLYATGMRVSELVTLSAHTLNLTERTMIIQGKGNKERLVILSPSA 179
                +   + L++ +  ATG R SE  T    +  +  +      K  K R V +S   
Sbjct: 18  ECDNSRNPDLGLIVRICLATGARWSEAET-LTQSQVMPYKITFTNTKSKKNRTVPISDEL 76

Query: 180 LHALQMYKKTCSSMKMTGNDLWLFPSSTKTGHLSRQVFARDLKALAARAGIQKKNISPHI 239
              L   +    +      +  +                              K    H+
Sbjct: 77  FDMLPKKRGRLFNDAYESFENAVLR----------------------AEIELPKGQLTHV 114

Query: 240 IRHAFASHLLEGGADLRTIQILLGHTDISTTQIYTHLLPDKLQKLVQDYHPLAKKEK 296
           +RH FASH +  G ++  ++ +LGH+ I  T  Y H  P  L+  V+ ++PL+   +
Sbjct: 115 LRHTFASHFMMNGGNILVLKEILGHSTIEMTMRYAHFAPSHLESAVK-FNPLSNPAQ 170


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

 Score = 69.2 bits (167), Expect = 4e-13
 Identities = 25/204 (12%), Positives = 61/204 (29%), Gaps = 29/204 (14%)

Query: 103 DTIANLLEQAKIEAENPAPGQWKRVRIFLLIELLYATGMRVSELVTLSAHTLNLTERTMI 162
           D + +L+E +          + + +R    + + Y T +R++E+  +    ++ T+   +
Sbjct: 14  DQVRSLMENSD---------RCQDIRNLAFLGIAYNTLLRIAEIARIRVKDISRTDGGRM 64

Query: 163 IQ-------GKGNKERLVILSPSALHALQMYKK-------------TCSSMKMTGNDLWL 202
           +                  LS      ++ +                             
Sbjct: 65  LIHIGRTKTLVSTAGVEKALSLGVTKLVERWISVSGVADDPNNYLFCRVRKNGVAAPSAT 124

Query: 203 FPSSTKTGHLSRQVFARDLKALAARAGIQKKNISPHIIRHAFASHLLEGGADLRTIQILL 262
              ST+      +   R +      +G +    S H  R   A  +   G  +  I    
Sbjct: 125 SQLSTRALEGIFEATHRLIYGAKDDSGQRYLAWSGHSARVGAARDMARAGVSIPEIMQAG 184

Query: 263 GHTDISTTQIYTHLLPDKLQKLVQ 286
           G T+++    +   L  +   +V+
Sbjct: 185 GWTNVNIVMNFIRNLDSETGAMVR 208


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

 Score = 65.5 bits (159), Expect = 4e-12
 Identities = 26/87 (29%), Positives = 50/87 (57%)

Query: 1  MMSSERASSINTLSAYKRDLKEMQNFLNNKEISLSAASTNHLISYLNHLSQRKLVTSSQR 60
           +  E+  + NTL+AY+RDL  M  +L+++ ++L+ A ++ L + L    +     +S  
Sbjct: 12 ALWLEKNLAENTLNAYRRDLSMMVEWLHHRGLTLATAQSDDLQALLAERLEGGYKATSSA 71

Query: 61 RKISVIRQFYNFLCYEGLRKDNPSDTL 87
          R +S +R+ + +L  E  R+D+PS  L
Sbjct: 72 RLLSAVRRLFQYLYREKFREDDPSAHL 98


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

 Score = 64.2 bits (154), Expect = 1e-11
 Identities = 26/158 (16%), Positives = 51/158 (32%), Gaps = 1/158 (0%)

Query: 128 RIFLLIELLYATGMRVSELVTLSAHTLNLTERTMIIQGKGNKERLVILSPSALHALQMYK 187
            + L +EL   TG RV +L  +    +       + Q K   +  +  +          K
Sbjct: 22  WLRLAMELAVVTGQRVGDLCEMKWSDIV-DGYLYVEQSKTGVKIAIPTALHIDALGISMK 80

Query: 188 KTCSSMKMTGNDLWLFPSSTKTGHLSRQVFARDLKALAARAGIQKKNISPHIIRHAFASH 247
           +T    K       +  S+ +    S  V    ++A  A     + +        + ++ 
Sbjct: 81  ETLDKCKEILGGETIIASTRREPLSSGTVSRYFMRARKASGLSFEGDPPTFHELRSLSAR 140

Query: 248 LLEGGADLRTIQILLGHTDISTTQIYTHLLPDKLQKLV 285
           L E     +  Q LLGH   +    +      +  K+ 
Sbjct: 141 LYEKQISDKFAQHLLGHKSDTMASQFRDDRGREWDKIE 178


>d1f44a1 a.60.9.1 (A:20-129) Cre recombinase {Bacteriophage P1
          [TaxId: 10678]}
          Length = 110

 Score = 48.3 bits (114), Expect = 7e-07
 Identities = 11/83 (13%), Positives = 23/83 (27%)

Query: 1  MMSSERASSINTLSAYKRDLKEMQNFLNNKEISLSAASTNHLISYLNHLSQRKLVTSSQR 60
          M    +A S +T        +    +          A    +  YL +L  R L   + +
Sbjct: 11 MFRDRQAFSEHTWKMLLSVCRSWAAWCKLNNRKWFPAEPEDVRDYLLYLQARGLAVKTIQ 70

Query: 61 RKISVIRQFYNFLCYEGLRKDNP 83
          + +  +   +           N 
Sbjct: 71 QHLGQLNMLHRRSGLPRPSDSNA 93


>d1k4ta3 e.15.1.1 (A:201-430) Eukaryotic DNA topoisomerase I,
           N-terminal DNA-binding fragment {Human (Homo sapiens)
           [TaxId: 9606]}
          Length = 230

 Score = 29.7 bits (67), Expect = 0.30
 Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 1/41 (2%)

Query: 88  ELPKKNHILPKTLHKDTIANLLEQAKIEAENPAPGQWKRVR 128
             PK   +  + + +D I N  + AK+    P   +WK VR
Sbjct: 166 NHPKMGMLKRRIMPEDIIINCSKDAKVP-SPPPGHKWKEVR 205


>d1oisa_ e.15.1.1 (A:) Eukaryotic DNA topoisomerase I, N-terminal
           DNA-binding fragment {Baker's yeast (Saccharomyces
           cerevisiae) [TaxId: 4932]}
          Length = 223

 Score = 28.5 bits (64), Expect = 0.78
 Identities = 9/41 (21%), Positives = 17/41 (41%), Gaps = 1/41 (2%)

Query: 88  ELPKKNHILPKTLHKDTIANLLEQAKIEAENPAPGQWKRVR 128
             PK   +  +   +D + NL + A +    P   +W  +R
Sbjct: 158 AHPKTGKLKRRVNPEDIVLNLSKDAPVP-PAPEGHKWGEIR 197


>d1edya_ b.2.4.1 (A:) alpha-1-macroglobulin {Rat (Rattus norvegicus)
           [TaxId: 10116]}
          Length = 134

 Score = 27.2 bits (60), Expect = 1.7
 Identities = 9/57 (15%), Positives = 26/57 (45%), Gaps = 1/57 (1%)

Query: 10  INTLSAYKRDLKEMQNFLNNKEISLSAASTNHLISYLNHLSQRKL-VTSSQRRKISV 65
           +  +S +      ++   +   I  +  +TNH++ Y+  L+ + +  + +  + I V
Sbjct: 46  VKMVSGFIPVKPSVKKLQDQSNIQRTEVNTNHVLIYIEKLTNQTMGFSFAVEQDIPV 102


>d2g39a2 c.124.1.2 (A:224-497) Acetyl-CoA hydrolase (PA5445)
           {Pseudomonas aeruginosa [TaxId: 287]}
          Length = 274

 Score = 24.8 bits (54), Expect = 9.2
 Identities = 9/32 (28%), Positives = 14/32 (43%), Gaps = 1/32 (3%)

Query: 217 FARDLKALAARAGIQKKNISPHIIRHAFASHL 248
           +   L      A  +  +  PH++R A A HL
Sbjct: 233 YQAPLLDYFEAACAKGGHT-PHLLREALAWHL 263


  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
   0.318    0.131    0.369 

Gapped
Lambda     K      H
   0.267   0.0606    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,018,475
Number of extensions: 44594
Number of successful extensions: 129
Number of sequences better than 10.0: 1
Number of HSP's gapped: 126
Number of HSP's successfully gapped: 15
Length of query: 300
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 215
Effective length of database: 1,240,546
Effective search space: 266717390
Effective search space used: 266717390
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: 41 (21.8 bits)
S2: 53 (24.5 bits)