RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780241|ref|YP_003064654.1| preprotein translocase subunit
SecY [Candidatus Liberibacter asiaticus str. psy62]
         (444 letters)



>d1rh5a_ f.41.1.1 (A:) Preprotein translocase SecY subunit {Archaeon
           Methanococcus jannaschii [TaxId: 2190]}
          Length = 422

 Score =  261 bits (668), Expect = 9e-71
 Identities = 70/432 (16%), Positives = 158/432 (36%), Gaps = 59/432 (13%)

Query: 19  RAKDLKSRIVFTIIALIVYRFGTYIPLPSIDFISYSKAFQSKSAGIFGLFNMFSGGAVER 78
           +    K ++ +T I L++Y     I + +           ++   IF  +   +      
Sbjct: 18  KEITFKEKLKWTGIVLVLYFIMGCIDVYTAG---------AQIPAIFEFWQTITAS--RI 66

Query: 79  MAVFSLGIMPYISASIIVQLIAATVPSLENLKKEGEQGRKVINQYTRYATVLLGILQAYG 138
             + +LGI P ++A II+QL+      +  +     + R +     +  ++++  ++A  
Sbjct: 67  GTLITLGIGPIVTAGIIMQLL--VGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAVL 124

Query: 139 IAVGLKNGQGIVSDSDYFFVFSTIITLLGGTMFLVWLGEQITMRGIGNGVSLIIFSGIVA 198
                  G G          F  II +  G++ L++L E ++  GIG+G+ L I +G+  
Sbjct: 125 FV-----GAGAFGILTPLLAFLVIIQIAFGSIILIYLDEIVSKYGIGSGIGLFIAAGVSQ 179

Query: 199 GLPS------SLVSVLELGRVGSISTPLMLLIFSSTVAVIALVIFFERAQRRLLIQYPKR 252
            +          +       +  +     +     T+ V  +V++ E  +  + + + + 
Sbjct: 180 TIFVGALGPEGYLWKFLNSLIQGVPNIEYIAPIIGTIIVFLMVVYAECMRVEIPLAHGRI 239

Query: 253 QVGNRMFQDDVSYLPLKLNTAGVVPSIFASSLLLLPATIM-------------------- 292
           +     +       P+K      +P I A++L                            
Sbjct: 240 KGAVGKY-------PIKFVYVSNIPVILAAALFANIQLWGLALYRMGIPILGHYEGGRAV 292

Query: 293 -GFIDVSSSPTWIVGLVDSLGHGRSFYMVLYSVFIVFFAFFYTAIVFNPKEAADNLKKHG 351
            G     S+P  +  ++    H   + + +    ++F  F+      +PK  A  +   G
Sbjct: 293 DGIAYYLSTPYGLSSVISDPIHAIVYMIAMIITCVMFGIFWVETTGLDPKSMAKRIGSLG 352

Query: 352 GFIPGIRPGDRTALH-IDYVLTRVTVVGAGYLVCVCIFPEALIAVTGVPVSLSGTSLLII 410
             I G R  ++   H +   +  +TV+ + ++  +      + A+ G      GT +L+ 
Sbjct: 353 MAIKGFRKSEKAIEHRLKRYIPPLTVMSSAFVGFLATIANFIGALGG------GTGVLLT 406

Query: 411 VSVVLDTIVQIQ 422
           VS+V     Q+ 
Sbjct: 407 VSIVYRMYEQLL 418


>d1amua_ e.23.1.1 (A:) Phenylalanine activating domain of gramicidin
           synthetase 1 {Bacillus brevis [TaxId: 1393]}
          Length = 514

 Score = 27.6 bits (60), Expect = 2.4
 Identities = 18/88 (20%), Positives = 29/88 (32%), Gaps = 5/88 (5%)

Query: 356 GIRPGDRTAL----HIDYVLTRVTVVGAGYLVCVCIFPEALIAVTGVPVSLSGTSLLIIV 411
           GI       +     ID  +  + V+ AG    V I  E         +  S   +L+  
Sbjct: 69  GIGKDTLVGIMMEKSIDLFIGILAVLKAG-GAYVPIDIEYPKERIQYILDDSQARMLLTQ 127

Query: 412 SVVLDTIVQIQGYLIAQQYEGVFKKSRS 439
             ++  I  IQ     + +E    K R 
Sbjct: 128 KHLVHLIHNIQFNGQVEIFEEDTIKIRE 155


>d3cw9a1 e.23.1.1 (A:1-503) 4-chlorobenzoyl CoA ligase {Alcaligenes
           sp. [TaxId: 512]}
          Length = 503

 Score = 26.5 bits (57), Expect = 4.1
 Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 5/38 (13%)

Query: 356 GIRPGDRTAL----HIDYVLTRVTVVGAGYLVCVCIFP 389
           G+RP  R A+      D V+  + +   G  V   + P
Sbjct: 50  GLRPQQRVAVVAPNSADVVIAILALHRLG-AVPALLNP 86


>d1v25a_ e.23.1.1 (A:) Long chain fatty acid-CoA ligase TT0168
           {Thermus thermophilus [TaxId: 274]}
          Length = 534

 Score = 26.4 bits (57), Expect = 5.4
 Identities = 17/82 (20%), Positives = 30/82 (36%), Gaps = 12/82 (14%)

Query: 356 GIRPGDRTAL----HIDYVLTRVTVVGAGYLVCVCIFP-------EALIAVTGVPVSLSG 404
           G+  GDR A     H  ++     V G G  V     P         ++      V L  
Sbjct: 61  GVGVGDRVATLGFNHFRHLEAYFAVPGMG-AVLHTANPRLSPKEIAYILNHAEDKVLLFD 119

Query: 405 TSLLIIVSVVLDTIVQIQGYLI 426
            +LL +V  +   +  +Q +++
Sbjct: 120 PNLLPLVEAIRGELKTVQHFVV 141


  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
   0.326    0.142    0.403 

Gapped
Lambda     K      H
   0.267   0.0659    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,574,524
Number of extensions: 74119
Number of successful extensions: 254
Number of sequences better than 10.0: 1
Number of HSP's gapped: 244
Number of HSP's successfully gapped: 12
Length of query: 444
Length of database: 2,407,596
Length adjustment: 88
Effective length of query: 356
Effective length of database: 1,199,356
Effective search space: 426970736
Effective search space used: 426970736
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.7 bits)