RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780472|ref|YP_003064885.1| cytochrome o ubiquinol oxidase
subunit III [Candidatus Liberibacter asiaticus str. psy62]
         (210 letters)



>d1fftc_ f.25.1.1 (C:) Cytochrome O ubiquinol oxidase, subunit III
           {Escherichia coli [TaxId: 562]}
          Length = 185

 Score =  108 bits (270), Expect = 5e-25
 Identities = 97/182 (53%), Positives = 125/182 (68%), Gaps = 1/182 (0%)

Query: 27  HDGTYLGFWIYLMSDCLMFAVFFVTYAVLGKNYAAGPAPIDVFDISGIFVSTIVLLLSSL 86
                 GFWIYLMSDC++F++ F TYAVL    A GP   D+F++  + V T +LL SS+
Sbjct: 4   GGTKIFGFWIYLMSDCILFSILFATYAVLVNGTAGGPTGKDIFELPFVLVETFLLLFSSI 63

Query: 87  SCSFAMLASATKRLIHKTVSWLLVTAFFGMIFIIMEIYEFAHLISMEAVPQRSAFLSSFF 146
           +   A +A   K    + +SWL +T  FG  FI MEIYEF HLI     P RS FLS+FF
Sbjct: 64  TYGMAAIA-MYKNNKSQVISWLALTWLFGAGFIGMEIYEFHHLIVNGMGPDRSGFLSAFF 122

Query: 147 ALVGLHGLHVFFGLIWLFVLVIQILKKGLISGNQRRLICLSMFWHFLDLIWICVFSFVYL 206
           ALVG HGLHV  GLIW+ VL++QI ++GL S N+ R++CLS+FWHFLD++WICVF+ VYL
Sbjct: 123 ALVGTHGLHVTSGLIWMAVLMVQIARRGLTSTNRTRIMCLSLFWHFLDVVWICVFTVVYL 182

Query: 207 MG 208
           MG
Sbjct: 183 MG 184


>d1v54c_ f.25.1.1 (C:) Mitochondrial cytochrome c oxidase, subunit
           III {Cow (Bos taurus) [TaxId: 9913]}
          Length = 259

 Score = 85.5 bits (211), Expect = 3e-18
 Identities = 41/187 (21%), Positives = 77/187 (41%), Gaps = 11/187 (5%)

Query: 29  GTYLGFWIYLMSDCLMFAVFFVTYAVL-------GKNYAAGPAPIDVFDISGIFVSTIVL 81
           G   G  ++++S+ L F  FF  +                      +  +    ++T VL
Sbjct: 76  GLRYGMILFIISEVLFFTGFFWAFYHSSLAPTPELGGCWPPTGIHPLNPLEVPLLNTSVL 135

Query: 82  LLSSLSCSFAMLASATKRLIHKTVSWLLVTAFFGMIFIIMEIYEFAHLISMEAVPQRSAF 141
           L S +S ++A  +   +      +  L +T   G+ F +++  E+              +
Sbjct: 136 LASGVSITWAHHS-LMEGDRKHMLQALFITITLGVYFTLLQASEYYE---APFTISDGVY 191

Query: 142 LSSFFALVGLHGLHVFFGLIWLFVLVIQILKKGLISGNQRRLICLSMFWHFLDLIWICVF 201
            S+FF   G HGLHV  G  +L V   + LK    S +       + +WHF+D++W+ ++
Sbjct: 192 GSTFFVATGFHGLHVIIGSTFLIVCFFRQLKFHFTSNHHFGFEAAAWYWHFVDVVWLFLY 251

Query: 202 SFVYLMG 208
             +Y  G
Sbjct: 252 VSIYWWG 258


>d1m56c_ f.25.1.1 (C:) Bacterial aa3 type cytochrome c oxidase
           subunit III {Rhodobacter sphaeroides [TaxId: 1063]}
          Length = 265

 Score = 81.7 bits (201), Expect = 5e-17
 Identities = 42/197 (21%), Positives = 85/197 (43%), Gaps = 14/197 (7%)

Query: 23  SCVDHDGTYLGFWIYLMSDCLMFAVFFVTYAVLGKNYAAGPAP-----------IDVFDI 71
           + V   G   GF +++MS+ + F+ +F ++           +P           I     
Sbjct: 71  TPVVRLGLRWGFILFIMSEVMFFSAWFWSFFKHALYPMGPESPIIDGIFPPEGIITFDPW 130

Query: 72  SGIFVSTIVLLLSSLSCSFAMLASATKRLIHKTVSWLLVTAFFGMIFIIMEIYEFAHLIS 131
               ++T++LL S  + ++A  A   +         L +    G +F + + YE++H   
Sbjct: 131 HLPLINTLILLCSGCAATWAHHALVHENNRRDVAWGLALAIALGALFTVFQAYEYSHAAF 190

Query: 132 MEAVPQRSAFLSSFFALVGLHGLHVFFGLIWLFVLVIQILKKGLISGNQRRLICLSMFWH 191
                  + + ++FF   G HG HV  G I+L V +I++ +                +WH
Sbjct: 191 G---FAGNIYGANFFMATGFHGFHVIVGTIFLLVCLIRVQRGHFTPEKHVGFEAAIWYWH 247

Query: 192 FLDLIWICVFSFVYLMG 208
           F+D++W+ +F+ +Y+ G
Sbjct: 248 FVDVVWLFLFASIYIWG 264


>d1b22a_ a.60.4.1 (A:) DNA repair protein Rad51, N-terminal domain
          {Human (Homo sapiens) [TaxId: 9606]}
          Length = 70

 Score = 26.2 bits (58), Expect = 2.0
 Identities = 10/43 (23%), Positives = 19/43 (44%)

Query: 57 KNYAAGPAPIDVFDISGIFVSTIVLLLSSLSCSFAMLASATKR 99
          +  + GP PI   +  GI  + +  L  +   +   +A A K+
Sbjct: 1  EEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKK 43


  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
   0.335    0.146    0.465 

Gapped
Lambda     K      H
   0.267   0.0593    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 782,765
Number of extensions: 32793
Number of successful extensions: 157
Number of sequences better than 10.0: 1
Number of HSP's gapped: 155
Number of HSP's successfully gapped: 26
Length of query: 210
Length of database: 2,407,596
Length adjustment: 81
Effective length of query: 129
Effective length of database: 1,295,466
Effective search space: 167115114
Effective search space used: 167115114
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 51 (23.7 bits)