RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780996|ref|YP_003065409.1| hypothetical protein
CLIBASIA_04485 [Candidatus Liberibacter asiaticus str. psy62]
         (109 letters)



>d1m3ya2 b.121.2.3 (A:222-437) Major capsid protein vp54 {Paramecium
           bursaria chlorella virus 1, PBCV-1 [TaxId: 10506]}
          Length = 216

 Score = 25.0 bits (53), Expect = 1.7
 Identities = 9/47 (19%), Positives = 14/47 (29%), Gaps = 1/47 (2%)

Query: 1   MPEDKWYIFYSGCGKNPVWDSMKGCLNFSSYDDNSGNIDTDESDINT 47
                    YS   K        G  NFS  D+ + ++      I+ 
Sbjct: 124 GVTPAGVYLYSFALKPAGRQPS-GTCNFSRIDNATLSLTYKTCSIDA 169


>g1f8v.1 b.121.4.4 (A:,D:) Alphanodavirus capsid protein
          {Pariacoto virus [TaxId: 103782]}
          Length = 395

 Score = 24.2 bits (52), Expect = 2.8
 Identities = 8/28 (28%), Positives = 11/28 (39%)

Query: 52 RKDVARVLQVSYPLPAPQEITPRMGNRK 79
          RK V+R   +    PA Q   P     +
Sbjct: 7  RKVVSRSTALVPMAPASQRTGPAPRKPR 34


>d1ys5a1 f.4.1.3 (A:2-156) Lipoprotein GNA1870 immunodominant domain
           {Neisseria meningitidis [TaxId: 487]}
          Length = 155

 Score = 24.1 bits (52), Expect = 3.6
 Identities = 5/31 (16%), Positives = 10/31 (32%)

Query: 19  WDSMKGCLNFSSYDDNSGNIDTDESDINTAI 49
           + + +G            N+D   +DI    
Sbjct: 72  FAAKQGNGKIEHLKSPELNVDLAAADIKPDG 102


>d2fjca1 a.25.1.1 (A:27-177) Dodecameric ferritin homolog {Treponema
           pallidum, TpF1 [TaxId: 160]}
          Length = 151

 Score = 23.2 bits (49), Expect = 6.6
 Identities = 11/85 (12%), Positives = 26/85 (30%), Gaps = 3/85 (3%)

Query: 17  PVWDSMKGCLNFSSYDDNSGNIDTDESDINTAIAIRKDVARVLQVSYPLPAPQEITPRMG 76
               SM   L  S   + +    T  S +     +++D   +             +    
Sbjct: 70  QAPASMAEYLALSGIAEETEKEITIVSAL---ARVKRDFEYLSTRFSQTQVLAAESGDAV 126

Query: 77  NRKTVELLIEIDDQKVWLLNVHLKS 101
               +  ++    + +W+L   LK+
Sbjct: 127 TDGIITDILRTLGKAIWMLGATLKA 151


>d2fb5a1 d.320.1.1 (A:5-205) Hypothetical protein BC4920 (YojJ)
           {Bacillus cereus [TaxId: 1396]}
          Length = 201

 Score = 22.9 bits (49), Expect = 8.0
 Identities = 7/31 (22%), Positives = 13/31 (41%)

Query: 48  AIAIRKDVARVLQVSYPLPAPQEITPRMGNR 78
           A+ ++ +         PL    E+ P +G R
Sbjct: 133 AVLVKNNHIVSAANILPLTKSTEVDPELGTR 163


>d1vpsa_ b.121.6.1 (A:) Polyomavirus coat proteins {Murine
           polyomavirus, strain small-plaque 16 [TaxId: 10634]}
          Length = 285

 Score = 22.9 bits (49), Expect = 8.3
 Identities = 11/32 (34%), Positives = 15/32 (46%)

Query: 71  ITPRMGNRKTVELLIEIDDQKVWLLNVHLKSS 102
           + PRMG   T E L E      W   ++L +S
Sbjct: 22  LNPRMGQPPTPESLTEGGQYYGWSRGINLATS 53


>d1ltka_ c.86.1.1 (A:) Phosphoglycerate kinase {Malaria parasite
           (Plasmodium falciparum) [TaxId: 5833]}
          Length = 417

 Score = 22.7 bits (48), Expect = 9.6
 Identities = 8/30 (26%), Positives = 18/30 (60%), Gaps = 3/30 (10%)

Query: 74  RMGNRKTVELLIEIDDQKVWL---LNVHLK 100
            +GN+ ++  L +I ++KV +    NV ++
Sbjct: 3   HLGNKLSISDLKDIKNKKVLVRVDFNVPIE 32


  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
   0.317    0.135    0.417 

Gapped
Lambda     K      H
   0.267   0.0551    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 422,749
Number of extensions: 16942
Number of successful extensions: 57
Number of sequences better than 10.0: 1
Number of HSP's gapped: 57
Number of HSP's successfully gapped: 15
Length of query: 109
Length of database: 2,407,596
Length adjustment: 68
Effective length of query: 41
Effective length of database: 1,473,956
Effective search space: 60432196
Effective search space used: 60432196
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 (21.7 bits)
S2: 47 (22.3 bits)