RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780147|ref|YP_003064560.1| 50S ribosomal protein L11 [Candidatus Liberibacter asiaticus str. psy62] (142 letters) >3egv_B 50S ribosomal protein L11, ribosomal protein L11 methyltransferase; post-translational modification, multiple methyltransferase, cytoplasm; HET: SAH 4MM; 1.75A {Thermus thermophilus} (B:) Length = 146 Score = 137 bits (346), Expect = 6e-34 Identities = 68/139 (48%), Positives = 91/139 (65%), Gaps = 1/139 (0%) Query: 3 KVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCY 62 K V +VKLQ+ +G+A P+PPVGPA+GQ G IM F KAFNAAT M +P +T Y Sbjct: 1 KKVVAVVKLQLPAGAATPAPPVGPALGQHGANIMEFVKAFNAATANM-GDAIVPVEITIY 59 Query: 63 KDKSFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDI 122 D+SFTF PP S+ ++K G++ G+ PG+E G IT E + +IA+ KM D+ D+ Sbjct: 60 ADRSFTFVTKTPPASYLIRKAAGLEKGAHKPGREKVGRITWEQVLEIAKQKMPDLNTTDL 119 Query: 123 EGAMRMVEGSACSMGISVV 141 E A RM+ GSA SMG+ VV Sbjct: 120 EAAARMIAGSARSMGVEVV 138 >1vq8_I 50S ribosomal protein L11P; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} (I:) Length = 162 Score = 136 bits (345), Expect = 9e-34 Identities = 36/137 (26%), Positives = 71/137 (51%), Gaps = 1/137 (0%) Query: 5 VSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKD 64 ++ +++ + G A P PP+GP +G + + A + N T G +P TV D Sbjct: 1 MAGTIEVLVPGGEANPGPPLGPELGPTPVDVQAVVQEINDQTAAF-DGTEVPVTVKYDDD 59 Query: 65 KSFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEG 124 SF + PP + +K E G ++GS P ++ ++ + +++IA+ K D+ + D+ Sbjct: 60 GSFEIEVGVPPTAELIKDEAGFETGSGEPQEDFVADLSVDQVKQIAEQKHPDLLSYDLTN 119 Query: 125 AMRMVEGSACSMGISVV 141 A + V G+ S+G+++ Sbjct: 120 AAKEVVGTCTSLGVTIE 136 >2zkr_i 60S ribosomal protein L12; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 1s1i_K (i:) Length = 165 Score = 125 bits (314), Expect = 3e-30 Identities = 28/144 (19%), Positives = 53/144 (36%), Gaps = 5/144 (3%) Query: 1 MAKVVS----RIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIP 56 M ++V L+ G + + P IG G+ AT KG+ I Sbjct: 1 MPPKFDPNEIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATGDW-KGLRIT 59 Query: 57 TTVTCYKDKSFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQD 116 +T ++ + + + K + G+IT + I IA+ Sbjct: 60 VKLTIQNRQAQIEVVPSASALIIKALKEPPRDRKKQKNIKHSGNITFDEIVNIARQMRHR 119 Query: 117 MGAIDIEGAMRMVEGSACSMGISV 140 A ++ G ++ + G+A S+G +V Sbjct: 120 SLARELSGTIKEILGTAQSVGCNV 143 >3i1n_I 50S ribosomal protein L11; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_I 3e1b_5 3e1d_5 1vs6_I 3i1p_I 3i1r_I 3i1t_I 3i20_I 3i22_I 2qam_I* 1p85_G 1p86_G 2awb_I 2aw4_I 2i2v_I 2j28_I 2i2t_I* 2qao_I* 2qba_I* 2qbc_I* ... (I:1-84) Length = 84 Score = 121 bits (305), Expect = 4e-29 Identities = 49/83 (59%), Positives = 59/83 (71%) Query: 1 MAKVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVT 60 MAK V VKLQ+ +G A PSPPVGPA+GQ G+ IM FCKAFNA T+ +EKG+PIP +T Sbjct: 1 MAKKVQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVIT 60 Query: 61 CYKDKSFTFTMSQPPVSFFLKKE 83 Y D+SFTF PP + LKK Sbjct: 61 VYADRSFTFVTKTPPAAVLLKKA 83 >2ftc_G L11MT, MRP-L11, 39S ribosomal protein L11, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_G (G:1-84) Length = 84 Score = 117 bits (295), Expect = 5e-28 Identities = 33/83 (39%), Positives = 51/83 (61%) Query: 3 KVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCY 62 V +++ + +G A P PP+GP +GQ G+ I FCK FN T+ +++GIP+PT + Sbjct: 2 PEVGGVIRAIVRAGLAMPGPPLGPVLGQRGVSINQFCKEFNERTKDIKEGIPLPTKILVK 61 Query: 63 KDKSFTFTMSQPPVSFFLKKEVG 85 D++F + QP VS+FLK G Sbjct: 62 PDRTFEIKIGQPTVSYFLKAAAG 84 >1mms_A Protein (ribosomal protein L11); RNA-protein complex, RNA, ribosome, translocation, thiostrepton; 2.57A {Thermotoga maritima} (A:1-72) Length = 72 Score = 98.2 bits (245), Expect = 4e-22 Identities = 38/73 (52%), Positives = 51/73 (69%), Gaps = 1/73 (1%) Query: 2 AKVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTC 61 AK V+ +KLQ+ +G A P+PPVGPA+GQ G+ IM FCK FNA T + G+ +P +T Sbjct: 1 AKKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETA-DKAGMILPVVITV 59 Query: 62 YKDKSFTFTMSQP 74 Y+DKSFTF + P Sbjct: 60 YEDKSFTFIIKTP 72 >3cjs_B 50S ribosomal protein L11, ribosomal protein L11 methyltransferase; S-adenosyl-L-methionine dependent methyltransferase; 1.37A {Thermus thermophilus} (B:) Length = 72 Score = 96.3 bits (240), Expect = 1e-21 Identities = 38/72 (52%), Positives = 46/72 (63%), Gaps = 1/72 (1%) Query: 3 KVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCY 62 K V +VKLQ+ +G A P+PPVGPA+GQ G IM F KAFNAAT M +P +T Y Sbjct: 2 KKVVAVVKLQLPAGKATPAPPVGPALGQHGANIMEFVKAFNAATANM-GDAIVPVEITIY 60 Query: 63 KDKSFTFTMSQP 74 D+SFTF P Sbjct: 61 ADRSFTFVTKTP 72 >1hc8_A Ribosomal protein L11; ribosome, ribosomal RNA, tertiary structure, RNA-protein; HET: GTP; 2.8A {Bacillus stearothermophilus} (A:) Length = 76 Score = 95.5 bits (238), Expect = 2e-21 Identities = 38/76 (50%), Positives = 50/76 (65%) Query: 67 FTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAM 126 FTF PP + LKK GI+SGS P + +I R+ +R+IA+LKM D+ A IE AM Sbjct: 1 FTFITKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKMPDLNAASIEAAM 60 Query: 127 RMVEGSACSMGISVVD 142 RM+EG+A SMGI V + Sbjct: 61 RMIEGTARSMGIVVEN 76 >3bbo_K Ribosomal protein L11; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} (K:1-144) Length = 144 Score = 93.5 bits (232), Expect = 1e-20 Identities = 37/73 (50%), Positives = 49/73 (67%), Gaps = 1/73 (1%) Query: 2 AKVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTC 61 AK V ++KL +E+G A P+PPVGPA+G G+ IMAFCK +NA T + G IP +T Sbjct: 73 AKKVIGVIKLALEAGKATPAPPVGPALGSKGVNIMAFCKDYNARTA-DKPGFVIPVEITV 131 Query: 62 YKDKSFTFTMSQP 74 + DKSFTF + P Sbjct: 132 FDDKSFTFILKTP 144 >1mms_A Protein (ribosomal protein L11); RNA-protein complex, RNA, ribosome, translocation, thiostrepton; 2.57A {Thermotoga maritima} (A:73-140) Length = 68 Score = 86.9 bits (216), Expect = 1e-18 Identities = 34/68 (50%), Positives = 47/68 (69%) Query: 75 PVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSAC 134 P SF LKK GI+ GS P ++ G +TR+ I +IA+ KM D+ A +E AM+++EG+A Sbjct: 1 PASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANSLEAAMKIIEGTAK 60 Query: 135 SMGISVVD 142 SMGI VVD Sbjct: 61 SMGIEVVD 68 >1qa6_A Ribosomal protein L11; ribosomal RNA, tertiary structur,E RNA-protein interaction, minor groove binding, antibiotic binding; 2.80A {Geobacillus stearothermophilus} (A:) Length = 67 Score = 86.2 bits (214), Expect = 2e-18 Identities = 34/66 (51%), Positives = 45/66 (68%) Query: 73 QPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGS 132 PP + LKK GI+SGS P + +I R+ +R+IA+LKM D+ A IE AMRM+EG+ Sbjct: 2 TPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKMPDLNAASIEAAMRMIEGT 61 Query: 133 ACSMGI 138 A SMGI Sbjct: 62 ARSMGI 67 >3bbo_K Ribosomal protein L11; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} (K:145-224) Length = 80 Score = 85.0 bits (211), Expect = 4e-18 Identities = 28/67 (41%), Positives = 38/67 (56%) Query: 75 PVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSAC 134 P S L K G + GSK P E G IT + +R IA K+ D+ IE AMR++ G+A Sbjct: 1 PASVLLLKASGAEKGSKDPQMEKVGKITIDQLRGIATEKLPDLNCTTIESAMRIIAGTAA 60 Query: 135 SMGISVV 141 +MGI + Sbjct: 61 NMGIDID 67 >3i1n_I 50S ribosomal protein L11; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_I 3e1b_5 3e1d_5 1vs6_I 3i1p_I 3i1r_I 3i1t_I 3i20_I 3i22_I 2qam_I* 1p85_G 1p86_G 2awb_I 2aw4_I 2i2v_I 2j28_I 2i2t_I* 2qao_I* 2qba_I* 2qbc_I* ... (I:85-142) Length = 58 Score = 82.7 bits (205), Expect = 2e-17 Identities = 29/58 (50%), Positives = 37/58 (63%) Query: 85 GIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSMGISVVD 142 GIKSGS P K+ G I+R +++IAQ K DM DIE R +EG+A SMG+ V D Sbjct: 1 GIKSGSGKPNKDKVGKISRAQLQEIAQTKAADMTGADIEAMTRSIEGTARSMGLVVED 58 >1wib_A 60S ribosomal protein L12; N-terminal domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, ribosome; NMR {Mus musculus} (A:) Length = 92 Score = 82.1 bits (203), Expect = 3e-17 Identities = 16/83 (19%), Positives = 27/83 (32%), Gaps = 3/83 (3%) Query: 3 KVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCY 62 ++V L+ G + + P IG G+ AT KG+ I +T Sbjct: 13 PNEVKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATGDW-KGLRITVKLTIQ 71 Query: 63 KDKSFTFTMSQPPVSFFLKKEVG 85 ++ + P S G Sbjct: 72 -NRQAQIEVV-PSASALSGPSSG 92 >2ftc_G L11MT, MRP-L11, 39S ribosomal protein L11, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_G (G:85-145) Length = 61 Score = 71.2 bits (175), Expect = 5e-14 Identities = 21/60 (35%), Positives = 37/60 (61%), Gaps = 4/60 (6%) Query: 86 IKSGSKLPGKESCGSITRENIRKIAQLKMQD----MGAIDIEGAMRMVEGSACSMGISVV 141 I+ G++ GKE G +T +++ +IA++K QD + + + +R + GSA S+GI VV Sbjct: 1 IEKGARQTGKEVAGLVTLKHVYEIARIKAQDEAFALQDVPLSSVVRSIIGSARSLGIRVV 60 >1jlx_A Agglutinin, amaranthin, ACA; complex (lectin/saccharide), T-disaccharide homodimer, bivalent, lectin; HET: GAL A2G; 2.20A {Amaranthus caudatus} (A:160-303) Length = 144 Score = 26.0 bits (57), Expect = 2.1 Identities = 7/27 (25%), Positives = 16/27 (59%) Query: 93 PGKESCGSITRENIRKIAQLKMQDMGA 119 PG +C + +N+ + A L++ ++G Sbjct: 116 PGFINCMNAATQNVDETAILEIIELGQ 142 Database: mmdb70 Posted date: Jun 20, 2010 3:12 AM Number of letters in database: 4,956,049 Number of sequences in database: 33,805 Lambda K H 0.317 0.133 0.379 Gapped Lambda K H 0.267 0.0770 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 1,019,450 Number of extensions: 42366 Number of successful extensions: 97 Number of sequences better than 10.0: 1 Number of HSP's gapped: 88 Number of HSP's successfully gapped: 20 Length of query: 142 Length of database: 4,956,049 Length adjustment: 80 Effective length of query: 62 Effective length of database: 2,251,649 Effective search space: 139602238 Effective search space used: 139602238 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)