RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780319|ref|YP_003064732.1| 50S ribosomal protein L35 [Candidatus Liberibacter asiaticus str. psy62] (67 letters) >2zjr_3 50S ribosomal protein L35; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.301.1.1 PDB: 2zjp_3* 1sm1_3 2zjq_3 3cf5_3* 3dll_3* 1nwy_3* 1nwx_3* 1xbp_3* 1nkw_3 1yl3_8 2b66_8 2b9n_8 2b9p_8 1pnu_3 1pny_3 1vor_5 1vou_5 1vow_5 1voy_5 1vp0_5 Length = 66 Score = 67.3 bits (165), Expect = 7e-13 Identities = 29/66 (43%), Positives = 37/66 (56%), Gaps = 1/66 (1%) Query: 1 MPKMKTNSSSKKRFSITATGKVRAQAAGKRHGMIKRSNKFIRNARGTMVLASADAKKVIR 60 MPKMKT+ +K+R IT TGKV A +GKRH +S IR VLA A+ ++ Sbjct: 1 MPKMKTHKMAKRRIKITGTGKVMAFKSGKRHQNTGKSGDEIRGKGKGFVLAKAEWARMKL 60 Query: 61 NYLPNG 66 LP G Sbjct: 61 -MLPRG 65 >2j01_8 50S ribosomal protein L35; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: d.301.1.1 PDB: 1vsp_a 2hgj_7 2hgq_7 2hgu_7 1vsa_a 2j03_8 2jl6_8 2jl8_8 2v47_8 2v49_8 2wdi_8 2wdj_8 2wdl_8 2wdn_8 2wh2_8 2wh4_8 3d5b_8 3d5d_8 3f1f_8 3f1h_8 ... Length = 65 Score = 65.1 bits (159), Expect = 3e-12 Identities = 28/60 (46%), Positives = 37/60 (61%) Query: 1 MPKMKTNSSSKKRFSITATGKVRAQAAGKRHGMIKRSNKFIRNARGTMVLASADAKKVIR 60 MPKMKT+ +KKR ITA+GKV A GKRH ++S K IR VLA +A+++ Sbjct: 1 MPKMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLAKPEAERIKL 60 >3i1n_3 50S ribosomal protein L35; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_3 1vs6_3 3i1p_3 3i1r_3 3i1t_3 3i20_3 3i22_3 2qam_3* 2awb_3 2aw4_3 2i2v_3 2j28_3 2i2t_3* 2qao_3* 2qba_3* 2qbc_3* 2qbe_3 2qbg_3 2qbi_3* 2qbk_3* ... Length = 65 Score = 62.4 bits (152), Expect = 2e-11 Identities = 20/60 (33%), Positives = 31/60 (51%) Query: 1 MPKMKTNSSSKKRFSITATGKVRAQAAGKRHGMIKRSNKFIRNARGTMVLASADAKKVIR 60 MPK+KT + KRF T G + + A RH + K++ K R+ R +++ D VI Sbjct: 1 MPKIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIA 60 >3ofq_3 50S ribosomal protein L35; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 2awb_3 2aw4_3 2i2v_3 2j28_3 2i2t_3* 2qao_3* 2qba_3* 2qbc_3* 2qbe_3 2qbg_3 2qbi_3* 2qbk_3* 2qov_3 2qox_3 2qoz_3* 2qp1_3* 2rdo_3 2vhm_3 2vhn_3 2wwq_7* ... Length = 64 Score = 62.3 bits (152), Expect = 3e-11 Identities = 19/59 (32%), Positives = 30/59 (50%) Query: 2 PKMKTNSSSKKRFSITATGKVRAQAAGKRHGMIKRSNKFIRNARGTMVLASADAKKVIR 60 PK+KT + KRF T G + + A RH + K++ K R+ R +++ D VI Sbjct: 1 PKIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIA 59 >3bbo_5 Ribosomal protein L35; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 159 Score = 59.5 bits (144), Expect = 2e-10 Identities = 20/58 (34%), Positives = 32/58 (55%) Query: 3 KMKTNSSSKKRFSITATGKVRAQAAGKRHGMIKRSNKFIRNARGTMVLASADAKKVIR 60 KMKT+ +S KRF +T GK+ + AGK+H + K++ K + + +D VI Sbjct: 91 KMKTHKASAKRFRVTGKGKIVRRRAGKQHLLAKKNTKRKNRLSKLIQVDRSDYDNVIG 148 >3gn6_A CT0912, orfan protein with A ferrodoxin-like domain repeat; orfan protein from chlorobium tepidum with A ferrodoxin-like domain repeat; HET: 2PE; 1.80A {Chlorobium tepidum tls} Length = 321 Score = 24.7 bits (53), Expect = 5.5 Identities = 11/32 (34%), Positives = 19/32 (59%) Query: 36 RSNKFIRNARGTMVLASADAKKVIRNYLPNGI 67 R N++ R A T +L +A A +R Y+ +G+ Sbjct: 245 RDNRYYRKALSTEILRNAHADGGLRAYIMHGV 276 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.317 0.127 0.342 Gapped Lambda K H 0.267 0.0728 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 517,778 Number of extensions: 17955 Number of successful extensions: 68 Number of sequences better than 10.0: 1 Number of HSP's gapped: 67 Number of HSP's successfully gapped: 9 Length of query: 67 Length of database: 5,693,230 Length adjustment: 37 Effective length of query: 30 Effective length of database: 4,796,202 Effective search space: 143886060 Effective search space used: 143886060 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: 50 (23.0 bits)