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)