RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780242|ref|YP_003064655.1| 50S ribosomal protein L15 [Candidatus Liberibacter asiaticus str. psy62] (151 letters) >3i1n_L 50S ribosomal protein L15; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1p85_J 1p86_J 1vs8_L 2aw4_L 2awb_L 1vs6_L 2i2v_L 2j28_L 2i2t_L* 2qao_L* 2qba_L* 2qbc_L* 2qbe_L 2qbg_L 2qbi_L* 2qbk_L* 2qov_L 2qox_L 2qoz_L* 2qp1_L* ... (L:) Length = 144 Score = 128 bits (324), Expect = 2e-31 Identities = 61/149 (40%), Positives = 82/149 (55%), Gaps = 8/149 (5%) Query: 1 MKLNEISYDKGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVR-GFEGGQMPLYRR 59 M+LN +S +GS K KR+ RGIGSG GKT GRG KGQKSRSG VR GFEGGQMPLYRR Sbjct: 1 MRLNTLSPAEGSKKAGKRLGRGIGSGLGKTGGRGHKGQKSRSGGGVRRGFEGGQMPLYRR 60 Query: 60 LPKRGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILSD 119 LPK GF + + I L L +D + L A+ ++ +++ Sbjct: 61 LPKFGFTSRKAAITAEIRLSDLAKVEGG-------VVDLNTLKAANIIGIQIEFAKVILA 113 Query: 120 GDLKAKVVLRVSGASASAVEKVEKLGGQV 148 G++ V +R + A +E GG++ Sbjct: 114 GEVTTPVTVRGLRVTKGARAAIEAAGGKI 142 >3bbo_N Ribosomal protein L15; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Pisum sativum} (N:) Length = 257 Score = 127 bits (319), Expect = 1e-30 Identities = 58/156 (37%), Positives = 88/156 (56%), Gaps = 5/156 (3%) Query: 1 MKLNEISYDKGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVR-GFEGGQMPLYRR 59 +L+ + GS K KR RGI +G G + G G++GQKSRSG + GFEGGQMPLYRR Sbjct: 65 FRLDNLGPQPGSRKRPKRKGRGIAAGQGASCGFGMRGQKSRSGPGIMRGFEGGQMPLYRR 124 Query: 60 LPK----RGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIR 115 LPK G ++ +V ++L ++ +D + S E + V + R + ++ Sbjct: 125 LPKLRGIAGGMHAGLPKYVNVNLTDIENAGFQDGEEVSLETLKAKRVINPSGRERKLPLK 184 Query: 116 ILSDGDLKAKVVLRVSGASASAVEKVEKLGGQVIVI 151 IL+DG+L K+ ++ S SA EK+E G +IV+ Sbjct: 185 ILADGELSKKLTIKAGAFSTSAKEKLEYAGCSLIVL 220 >2j01_P 50S ribosomal protein L15; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} (P:) Length = 150 Score = 121 bits (305), Expect = 4e-29 Identities = 54/153 (35%), Positives = 82/153 (53%), Gaps = 7/153 (4%) Query: 1 MKLNEISYDKGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSV--RGFEGGQMPLYR 58 MKL+++ + G+ K +KRV RG GSG GKTA RG KGQKSRSG R FEGG+ Sbjct: 1 MKLSDLRPNPGANKRRKRVGRGPGSGHGKTATRGHKGQKSRSGGLKDPRRFEGGRSTTLM 60 Query: 59 RLPKRGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILS 118 RLPKRG + + E+ +LV +GL+++ ++IL Sbjct: 61 RLPKRGMQGQVPGEIKRPRYQGVNLKDLARFEG---EVTPELLVRAGLLKK-GYRLKILG 116 Query: 119 DGDLKAKVVLRVSGASASAVEKVEKLGGQVIVI 151 +G+ K + + S SA+EK++ GG+ +++ Sbjct: 117 EGEAK-PLKVVAHAFSKSALEKLKAAGGEPVLL 148 >2zjr_I 50S ribosomal protein L15; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} (I:) Length = 156 Score = 115 bits (290), Expect = 2e-27 Identities = 64/152 (42%), Positives = 86/152 (56%), Gaps = 10/152 (6%) Query: 1 MKLNEISYDKGSCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVR-GFEGGQMPLYRR 59 MKL+++ GS K +KRV RG G KTAGRG KGQKSRSG FEGG+ L R Sbjct: 1 MKLHDLKPTPGSRKDRKRVGRGPGGT-DKTAGRGHKGQKSRSGAGKGAFFEGGRSRLIAR 59 Query: 60 LPKRGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILSD 119 LPKRGF N+ + + + L LQ D D L A LVRR R +++L+ Sbjct: 60 LPKRGFNNVG-TTYEVVKLSQLQDLEDT-------TFDRDTLEAYRLVRRKNRPVKLLAS 111 Query: 120 GDLKAKVVLRVSGASASAVEKVEKLGGQVIVI 151 G++ V + V ASA+A++ VE GG+V++ Sbjct: 112 GEISRAVTVHVDAASAAAIKAVEAAGGRVVLP 143 >1vq8_L 50S ribosomal protein L15P; 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} (L:) Length = 165 Score = 109 bits (273), Expect = 2e-25 Identities = 27/147 (18%), Positives = 52/147 (35%), Gaps = 12/147 (8%) Query: 12 SCKVKKRVARGIGSGTGKTA-GRGVKGQKSRSGVSVRGFEGGQMPLYRRLPKRGFVNIAG 70 S K ++R +R G G+ K G G +G + +G + + + L K GF Sbjct: 3 SKKKRQRGSRTHGGGSHKNRRGAGHRGGRGDAG-----RDKHEFHNHEPLGKSGFKRPQK 57 Query: 71 SDFVTISLGLLQAYIDKD------RLDCSSEIDASVLVASGLVRRSQRGIRILSDGDLKA 124 ++ + + + + + +++L G ++ Sbjct: 58 VQEEAATIDVREIDENVTLLAADDVAEVEDGGFRVDVRDVVEEADDADYVKVLGAGQVRH 117 Query: 125 KVVLRVSGASASAVEKVEKLGGQVIVI 151 ++ L S A EKVE GG V + Sbjct: 118 ELTLIADDFSEGAREKVEGAGGSVELT 144 >2zkr_l 60S ribosomal protein L27A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} (l:) Length = 148 Score = 92.7 bits (230), Expect = 2e-20 Identities = 29/150 (19%), Positives = 51/150 (34%), Gaps = 15/150 (10%) Query: 12 SCKVKKRVARGIGSGTGKTAGRGVKGQKSRSGVSVR-GFEGGQMPLYRRLPKRG------ 64 S K R RG S GR K +K G G ++ + P Sbjct: 3 SRLRKTRKLRGHVSHGH---GRIGKHRKHPGGRGNAGGMHHHRINFDKYHPGYFGKVGMK 59 Query: 65 --FVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRILSDGDL 122 + S T++L + + + VA + ++L G L Sbjct: 60 HYHLKRNQSFCPTVNLDKPWTLVSEQTRV--NAAKNKTGVAPIIDVVRSGYYKVLGKGKL 117 Query: 123 -KAKVVLRVSGASASAVEKVEKLGGQVIVI 151 K V+++ S A EK++ +GG +++ Sbjct: 118 PKQPVIVKAKFFSRRAEEKIKSVGGACVLV 147 >3jyw_O 60S ribosomal protein L18(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_O (O:) Length = 121 Score = 74.1 bits (182), Expect = 8e-15 Identities = 12/104 (11%), Positives = 32/104 (30%), Gaps = 15/104 (14%) Query: 48 GFEGGQMPLYRRLPKRGFVNIAGSDFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLV 107 P + + K F++ + +S+ + + ++ + + + + Sbjct: 16 LARRTDAPFNKVVLKALFLSK--INRPPVSVSRIARALKQEGAANKTVVVVGTVTDDARI 73 Query: 108 RRSQRGIRILSDGDLKAKVVLRVSGASASAVEKVEKLGGQVIVI 151 K + +A A K+ K GG+ I + Sbjct: 74 FEF-------------PKTTVAALRFTAGARAKIVKAGGECITL 104 >3jyw_V 60S ribosomal protein L28; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_V (V:49-142) Length = 94 Score = 69.4 bits (170), Expect = 2e-13 Identities = 19/95 (20%), Positives = 34/95 (35%), Gaps = 3/95 (3%) Query: 59 RLPKRGFVNIAGS-DFVTISLGLLQAYIDKDRLDCSSEIDASVLVASGLVRRSQRGIRIL 117 ++ R F ++L L I +D+ D + + +IL Sbjct: 1 KVGMRYFHKQQAHFWKPVLNLDKLWTLIPEDKRDQYLKSASKETAPVIDTLA-AGYGKIL 59 Query: 118 SDGDL-KAKVVLRVSGASASAVEKVEKLGGQVIVI 151 G + V+++ S A EK+ GG V +I Sbjct: 60 GKGRIPNVPVIVKARFVSKLAEEKIRAAGGVVELI 94 >1vq8_O 50S ribosomal protein L18E; 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} (O:39-116) Length = 78 Score = 41.5 bits (98), Expect = 6e-05 Identities = 9/39 (23%), Positives = 19/39 (48%) Query: 113 GIRILSDGDLKAKVVLRVSGASASAVEKVEKLGGQVIVI 151 ++L G L+ V + S +A K++++G V + Sbjct: 24 PGKVLGSGVLQKDVTVAAVDFSGTAETKIDQVGEAVSLE 62 >2nm0_A Probable 3-oxacyl-(acyl-carrier-protein) reductase; oxidoreductase; 1.99A {Streptomyces coelicolor A3} (A:) Length = 253 Score = 31.2 bits (68), Expect = 0.066 Identities = 7/47 (14%), Positives = 14/47 (29%), Gaps = 5/47 (10%) Query: 108 RRSQRGIRILSDGDLKAKVVLRVSGAS----ASAVEKVEKLGGQVIV 150 L ++ VL V+G + + G +V + Sbjct: 5 HHHHHHSSGLVPRSHMSRSVL-VTGGNRGIGLAIARAFADAGDKVAI 50 >1sny_A Sniffer CG10964-PA; alpha and beta protein, rossmann fold, dinucleotide binding motif, oxidoreductase; HET: NAP; 1.75A {Drosophila melanogaster} (A:) Length = 267 Score = 30.9 bits (67), Expect = 0.079 Identities = 3/27 (11%), Positives = 7/27 (25%), Gaps = 1/27 (3%) Query: 108 RRSQRGIRILSDGDLKAKVVLRVSGAS 134 L +L ++G + Sbjct: 5 HHHHHHSSGLVPRGSHXNSIL-ITGCN 30 >3hve_A Gigaxonin; ubiquitin, cytoplasm, cytoskeleton, disease mutation, kelch repeat, neurodegeneration, phosphoprotein, polymorphism, UBL conjugation; 2.80A {Homo sapiens} PDB: 3hve_B (A:170-256) Length = 87 Score = 27.5 bits (61), Expect = 0.81 Identities = 6/26 (23%), Positives = 14/26 (53%) Query: 72 DFVTISLGLLQAYIDKDRLDCSSEID 97 +F+ +S L+ I ++L+ +E Sbjct: 2 EFLELSPQKLKEVISLEKLNVGNERY 27 >3c4n_A Uncharacterized protein DR_0571; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; HET: ADP; 2.40A {Deinococcus radiodurans R1} (A:77-170,A:247-357) Length = 205 Score = 26.6 bits (58), Expect = 1.4 Identities = 15/32 (46%), Positives = 16/32 (50%) Query: 82 QAYIDKDRLDCSSEIDASVLVASGLVRRSQRG 113 +AY RLD S VL ASGL R Q G Sbjct: 100 RAYRQFPRLDLLSGAQTPVLRASGLTLRPQNG 131 >2o16_A Acetoin utilization protein ACUB, putative; structural genomics, unknown function, PSI-2, protein structure initiative; 1.90A {Vibrio cholerae} (A:110-160) Length = 51 Score = 26.4 bits (58), Expect = 2.0 Identities = 10/30 (33%), Positives = 17/30 (56%) Query: 68 IAGSDFVTISLGLLQAYIDKDRLDCSSEID 97 I SDFVTI++ LL+ + + + E + Sbjct: 15 ITDSDFVTIAINLLELQEESEPDELDEEQE 44 >3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation termination, ATP-binding, cytoplasm, hydrolase, membrane; 2.80A {Schizosaccharomyces pombe} (A:1-326) Length = 326 Score = 25.9 bits (56), Expect = 2.3 Identities = 7/8 (87%), Positives = 7/8 (87%) Query: 25 SGTGKTAG 32 SGTGKTA Sbjct: 167 SGTGKTAA 174 >3i3n_A Kelch-like protein 11; structural genomics, BTB, KLHL11A, SGC, structural genomics consortium, kelch repeat, secreted, protein binding; 2.60A {Homo sapiens} (A:178-234) Length = 57 Score = 25.8 bits (57), Expect = 2.4 Identities = 5/26 (19%), Positives = 12/26 (46%) Query: 72 DFVTISLGLLQAYIDKDRLDCSSEID 97 +F T+ L++ ++ + SE Sbjct: 2 EFYTLPFHLIRDWLSDLEITVDSEEV 27 >2aua_A Hypothetical protein; dimer, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; 2.35A {Bacillus cereus} (A:) Length = 224 Score = 25.6 bits (56), Expect = 3.0 Identities = 7/22 (31%), Positives = 10/22 (45%) Query: 56 LYRRLPKRGFVNIAGSDFVTIS 77 LY +R +N G D + I Sbjct: 57 LYHFFFEREQLNANGEDGIQIL 78 >2wwb_H 60S ribosomal protein L4-B; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Triticum aestivum} PDB: 2wwa_H 2ww9_H 1s1i_D (H:139-362) Length = 224 Score = 24.0 bits (52), Expect = 8.8 Identities = 13/67 (19%), Positives = 25/67 (37%), Gaps = 9/67 (13%) Query: 17 KRVARGIGSGTGKTAGRGVKGQKSRSGVSVRGFEGGQMPLYRRLPKRGFVNIAGSDFVTI 76 +V + GK R + + R + V + G + + N+ G + + Sbjct: 41 LKVLKSKKLRAGKGKYRNRRWTQRRGPLVVYAEDNGIV--------KALRNVPGVETANV 92 Query: 77 S-LGLLQ 82 + L LLQ Sbjct: 93 ASLNLLQ 99 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 0.137 0.372 Gapped Lambda K H 0.267 0.0647 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 1,065,022 Number of extensions: 44555 Number of successful extensions: 141 Number of sequences better than 10.0: 1 Number of HSP's gapped: 125 Number of HSP's successfully gapped: 24 Length of query: 151 Length of database: 4,956,049 Length adjustment: 81 Effective length of query: 70 Effective length of database: 2,217,844 Effective search space: 155249080 Effective search space used: 155249080 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 (21.6 bits) S2: 51 (23.6 bits)