RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780295|ref|YP_003064708.1| tRNA pseudouridine synthase A
[Candidatus Liberibacter asiaticus str. psy62]
         (247 letters)



>d1dj0a_ d.265.1.1 (A:) Pseudouridine synthase I TruA {Escherichia
           coli [TaxId: 562]}
          Length = 264

 Score =  174 bits (441), Expect = 7e-45
 Identities = 89/246 (36%), Positives = 128/246 (52%), Gaps = 2/246 (0%)

Query: 1   MIRYCMIIEYNGSGYFGWQRQKNGSSIQGSIEKAIFLVTGEIVVVHGAGRTDSGVHALRQ 60
           + +  + IEY+GS Y+GWQRQ    S+Q  +EKA+  V  E + V  AGRTD+GVH   Q
Sbjct: 3   VYKIALGIEYDGSKYYGWQRQNEVRSVQEKLEKALSQVANEPITVFCAGRTDAGVHGTGQ 62

Query: 61  VAHFDLVREWVPVILCKALNAYLKISDTISILNLSIVDKQFHARFSAIRRSYLYRIITRQ 120
           V HF+             +NA L     +  +    V   FHARFSA  R Y Y I   +
Sbjct: 63  VVHFETTALRKDAAWTLGVNANLPGDIAVRWVK--TVPDDFHARFSATARRYRYIIYNHR 120

Query: 121 APLALEKGRAWLIPKSLDCENMRIAAQHLVGRHDFTTFRSIHCQASSPIRTIDHFDVNSF 180
              A+         + LD E M  AAQ L+G +DFT+FR++ CQ+ +P R + H +V   
Sbjct: 121 LRPAVLSKGVTHFYEPLDAERMHRAAQCLLGENDFTSFRAVQCQSRTPWRNVMHINVTRH 180

Query: 181 GNLIEIRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKALQAQDRKECGPLAPPEGLY 240
           G  + + + A +F+H  +R+ VGSL  VG      + + + L A+DR      A  EGLY
Sbjct: 181 GPYVVVDIKANAFVHHMVRNIVGSLMEVGAHNQPESWIAELLAAKDRTLAAATAKAEGLY 240

Query: 241 FDSVEY 246
             +V+Y
Sbjct: 241 LVAVDY 246


>d3ckca1 a.118.8.6 (A:42-551) Starch utilization system protein SusD
           {Bacteroides thetaiotaomicron [TaxId: 818]}
          Length = 510

 Score = 27.3 bits (59), Expect = 1.2
 Identities = 8/79 (10%), Positives = 24/79 (30%), Gaps = 2/79 (2%)

Query: 55  VHALRQVAHFDLVREWVPVILCKALNAYLKISDTIS-ILNLSIVDKQFHARFSAIRRSYL 113
           +  LR + ++  +  +      +  +  L +    + +      +           R   
Sbjct: 114 IRFLRALHYWYFLDLFGKAPFKEHFSNDLPVEKKGTELYTYIQNELNEIEADMYEPRQAP 173

Query: 114 YRIITRQAPLALEKGRAWL 132
           +    + A   L + R +L
Sbjct: 174 FGRADKAANWLL-RARLYL 191


>d1jiha2 e.8.1.7 (A:1-389) DNA polymerase eta {Baker's yeast
           (Saccharomyces cerevisiae) [TaxId: 4932]}
          Length = 389

 Score = 26.0 bits (56), Expect = 3.3
 Identities = 7/27 (25%), Positives = 11/27 (40%)

Query: 154 DFTTFRSIHCQASSPIRTIDHFDVNSF 180
           +     S      S +  I H D+N+F
Sbjct: 8   ELIQLGSPSKAYESSLACIAHIDMNAF 34


>d1uc2a_ d.261.1.1 (A:) Hypothetical protein PH1602 {Archaeon
           Pyrococcus horikoshii [TaxId: 53953]}
          Length = 480

 Score = 25.0 bits (54), Expect = 6.9
 Identities = 10/24 (41%), Positives = 12/24 (50%)

Query: 46  HGAGRTDSGVHALRQVAHFDLVRE 69
           HGAGR  S   A RQ     + +E
Sbjct: 403 HGAGRVLSRKAATRQYRGDRIRQE 426


>d1ei9a_ c.69.1.13 (A:) Palmitoyl protein thioesterase 1 {Cow (Bos
          taurus) [TaxId: 9913]}
          Length = 279

 Score = 24.9 bits (54), Expect = 7.2
 Identities = 4/23 (17%), Positives = 10/23 (43%)

Query: 42 IVVVHGAGRTDSGVHALRQVAHF 64
          +V+ HG G +     ++  +   
Sbjct: 8  LVIWHGMGDSCCNPLSMGAIKKM 30


  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
   0.325    0.138    0.421 

Gapped
Lambda     K      H
   0.267   0.0637    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 964,758
Number of extensions: 43942
Number of successful extensions: 121
Number of sequences better than 10.0: 1
Number of HSP's gapped: 120
Number of HSP's successfully gapped: 7
Length of query: 247
Length of database: 2,407,596
Length adjustment: 83
Effective length of query: 164
Effective length of database: 1,268,006
Effective search space: 207952984
Effective search space used: 207952984
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.0 bits)