RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780646|ref|YP_003065059.1| 50S ribosomal protein L21 [Candidatus Liberibacter asiaticus str. psy62] (103 letters) >3bbo_T Ribosomal protein L21; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 257 Score = 133 bits (336), Expect = 9e-33 Identities = 40/102 (39%), Positives = 58/102 (56%), Gaps = 1/102 (0%) Query: 1 MFAIIEHGGKQSRVSATDTITVEKI-VAKDGDNIRFDNVLAVGKDEHLSVGTPRVEGAYV 59 +FA++ G +Q V I +++ A D I + VL VG +GTP V A V Sbjct: 124 IFAVVVIGSRQYIVIPGRWIYTQRLKGATVNDKIVLNKVLLVGTKASTYIGTPIVTNAAV 183 Query: 60 EAEVVKQLRTKKVVVFKKRRRQNYRRTHGHRQEMTVVRITSI 101 A V +QL KV+VFK ++++NYRR GHRQ +T ++IT I Sbjct: 184 HAVVEEQLLDDKVIVFKYKKKKNYRRNIGHRQPITRIKITGI 225 >3ofq_R 50S ribosomal protein L21; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 1vs8_R 1vs6_R 2aw4_R 2awb_R 1vt2_R 2i2v_R 2j28_R 2i2t_R* 2qao_R* 2qba_R* 2qbc_R* 2qbe_R 2qbg_R 2qbi_R* 2qbk_R* 2qov_R 2qox_R 2qoz_R* 2qp1_R* 2rdo_R ... Length = 103 Score = 118 bits (297), Expect = 3e-28 Identities = 43/101 (42%), Positives = 63/101 (62%) Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDEHLSVGTPRVEGAYVE 60 M+A+ + GGKQ RVS T+ +EK+ G+ + F VL + E + +G P V+G ++ Sbjct: 1 MYAVFQSGGKQHRVSEGQTVRLEKLDIATGETVEFAEVLMIANGEEVKIGVPFVDGGVIK 60 Query: 61 AEVVKQLRTKKVVVFKKRRRQNYRRTHGHRQEMTVVRITSI 101 AEVV R +KV + K RRR++YR+ GHRQ T V+IT I Sbjct: 61 AEVVAHGRGEKVKIVKFRRRKHYRKQQGHRQWFTDVKITGI 101 >3i1n_R 50S ribosomal protein L21; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1vs8_R 2aw4_R 2awb_R 1vs6_R 2i2v_R 2j28_R 2i2t_R* 2qao_R* 2qba_R* 2qbc_R* 2qbe_R 2qbg_R 2qbi_R* 2qbk_R* 2qov_R 2qox_R 2qoz_R* 2qp1_R* 2rdo_R 2vhm_R ... Length = 103 Score = 109 bits (275), Expect = 1e-25 Identities = 43/101 (42%), Positives = 63/101 (62%) Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDEHLSVGTPRVEGAYVE 60 M+A+ + GGKQ RVS T+ +EK+ G+ + F VL + E + +G P V+G ++ Sbjct: 1 MYAVFQSGGKQHRVSEGQTVRLEKLDIATGETVEFAEVLMIANGEEVKIGVPFVDGGVIK 60 Query: 61 AEVVKQLRTKKVVVFKKRRRQNYRRTHGHRQEMTVVRITSI 101 AEVV R +KV + K RRR++YR+ GHRQ T V+IT I Sbjct: 61 AEVVAHGRGEKVKIVKFRRRKHYRKQQGHRQWFTDVKITGI 101 >2zjr_O 50S ribosomal protein L21; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.155.1.1 PDB: 1nwx_P* 1nwy_P* 1pnu_P 1pny_P 1sm1_P* 1vor_S 1vou_S 1vow_S 1voy_S 1vp0_S 1xbp_P* 1yl3_2 2b66_V 2b9n_V 2b9p_V 2zjp_O* 2zjq_O 1nkw_P 3cf5_O* 3dll_O* Length = 100 Score = 102 bits (255), Expect = 3e-23 Identities = 38/101 (37%), Positives = 51/101 (50%), Gaps = 3/101 (2%) Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDEHLSVGTPRVEGAYVE 60 MFAII+ GGKQ RVS D I VE + + GD + + G+ V+ Sbjct: 1 MFAIIQTGGKQYRVSEGDVIRVESLQGEAGDKVELKALFVGGEQTV---FGEDAGKYTVQ 57 Query: 61 AEVVKQLRTKKVVVFKKRRRQNYRRTHGHRQEMTVVRITSI 101 AEVV+ R KK+ + K + YRR GHRQ T ++I I Sbjct: 58 AEVVEHGRGKKIYIRKYKSGVQYRRRTGHRQNFTAIKILGI 98 >2j01_V 50S ribosomal protein L21; ribosome, tRNA, paromomycin, mRNA, translation; 2.8A {Thermus thermophilus} SCOP: b.155.1.1 PDB: 1vsp_P 2hgj_U 2hgq_U 2hgu_U 1vsa_P 2j03_V 2jl6_V 2jl8_V 2v47_V 2v49_V 2wdi_V 2wdj_V 2wdl_V 2wdn_V 2wh2_V 2wh4_V 3d5b_V 3d5d_V 3f1f_V 3f1h_V ... Length = 101 Score = 99.5 bits (248), Expect = 1e-22 Identities = 44/101 (43%), Positives = 58/101 (57%), Gaps = 2/101 (1%) Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDEHLSVGTPRVEGAYVE 60 MFAI++ GGKQ RV + VEK+ A+ G + +L G+ VGTP VEGA V Sbjct: 1 MFAIVKTGGKQYRVEPGLKLRVEKLDAEPGATVELPVLLLGGEKTV--VGTPVVEGASVV 58 Query: 61 AEVVKQLRTKKVVVFKKRRRQNYRRTHGHRQEMTVVRITSI 101 AEV+ R KK++V K + + YRR GHRQ T + I I Sbjct: 59 AEVLGHGRGKKILVSKFKAKVQYRRKKGHRQPYTELLIKEI 99 >1bdo_A Acetyl-COA carboxylase; BCCPSC, carboxyl transferase, fatty acid biosynthesis, hammerhead structure, selenomethionine, ligase; HET: BTN; 1.80A {Escherichia coli} SCOP: b.84.1.1 PDB: 2bdo_A* 1a6x_A 3bdo_A Length = 80 Score = 30.3 bits (68), Expect = 0.10 Identities = 11/41 (26%), Positives = 20/41 (48%) Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41 I+E +++ A + TV+ I+ + G + FD L V Sbjct: 38 TLCIVEAMKMMNQIEADKSGTVKAILVESGQPVEFDEPLVV 78 >1gjx_A Pyruvate dehydrogenase; oxidoreductase, lipoyl domain, dihydrolipoyl dehydrogenase, multienzyme complex, post-translational modification; NMR {Neisseria meningitidis} SCOP: b.84.1.1 Length = 81 Score = 26.6 bits (59), Expect = 1.5 Identities = 9/39 (23%), Positives = 15/39 (38%) Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41 +E V A V+++ K GD I ++ V Sbjct: 36 ITLETDKATMDVPAEVAGVVKEVKVKVGDKISEGGLIVV 74 >2k7v_A Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase...; misfolded dimer, acyltransferase, glycolysis; NMR {Escherichia coli} Length = 85 Score = 25.6 bits (56), Expect = 2.9 Identities = 6/39 (15%), Positives = 16/39 (41%) Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41 +E V A V+++ GD ++ +++ + Sbjct: 31 ITVEGDKASMEVPAPFAGVVKELKVNVGDKVKTGSLIMI 69 >1qjo_A Dihydrolipoamide acetyltransferase; lipoyl domain, pyruvate dehydrogenase; NMR {Escherichia coli} SCOP: b.84.1.1 Length = 80 Score = 25.5 bits (56), Expect = 3.0 Identities = 6/39 (15%), Positives = 16/39 (41%) Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41 +E V A V+++ GD ++ +++ + Sbjct: 35 ITVEGDKASMEVPAPFAGVVKELKVNVGDKVKTGSLIMI 73 >1dcz_A Transcarboxylase 1.3S subunit; antiparallel beta sheet, hammerhead, biocytin; NMR {Propionibacterium freudenreichiisubsp} SCOP: b.84.1.1 PDB: 1dd2_A 1o78_A Length = 77 Score = 25.2 bits (55), Expect = 3.2 Identities = 8/39 (20%), Positives = 19/39 (48%) Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41 ++E ++ ++A VEK++ K+ D ++ L Sbjct: 37 LVLEAMKMETEINAPTDGKVEKVLVKERDAVQGGQGLIK 75 >2d5d_A Methylmalonyl-COA decarboxylase gamma chain; biotin, domain, BCCP, X-RAY diffraction, structural genomics, NPPSFA; 1.55A {Pyrococcus horikoshii OT3} PDB: 2ejf_C* 2ejg_C* 2evb_A Length = 74 Score = 25.1 bits (55), Expect = 3.4 Identities = 6/39 (15%), Positives = 18/39 (46%) Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41 ++E ++ + + V++I+ K+G+ + L Sbjct: 34 LVLEAMKMENEIPSPRDGVVKRILVKEGEAVDTGQPLIE 72 >2jku_A Propionyl-COA carboxylase alpha chain, mitochondrial; ligase, biotin, ATP-binding, polymorphism, disease mutation, nucleotide-binding; HET: PG4; 1.5A {Homo sapiens} Length = 94 Score = 25.3 bits (55), Expect = 3.5 Identities = 10/39 (25%), Positives = 20/39 (51%) Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41 +IE Q+ ++A T TV+ + + GD + ++L Sbjct: 54 CVIEAMKMQNSMTAGKTGTVKSVHCQAGDTVGEGDLLVE 92 >1k8m_A E2 component of branched-chain ahpha-ketoacid dehydrogenase; lipoyl acid bearing, human BCKD, experimental DATA, average structure, transferase; NMR {Homo sapiens} SCOP: b.84.1.1 PDB: 1k8o_A Length = 93 Score = 25.1 bits (55), Expect = 3.8 Identities = 3/39 (7%), Positives = 11/39 (28%) Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41 ++ +++ ++K+ D L Sbjct: 39 CEVQSDKASVTITSRYDGVIKKLYYNLDDIAYVGKPLVD 77 >1iyu_A E2P, dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex; glycolysis, acyltransferase, lipoyl; NMR {Azotobacter vinelandii} SCOP: b.84.1.1 PDB: 1iyv_A Length = 79 Score = 25.1 bits (55), Expect = 4.2 Identities = 6/39 (15%), Positives = 15/39 (38%) Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41 ++E V + V+ + K GD ++ + + Sbjct: 33 VVLESAKASMEVPSPKAGVVKSVSVKLGDKLKEGDAIIE 71 >1y8o_B Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase...; pyruvate dehydrogenase kinase 3, lipoyl-bearing domain; HET: LPA ADP; 2.48A {Homo sapiens} SCOP: b.84.1.1 PDB: 1y8n_B* 1y8p_B* 2pnr_C* 2q8i_B* 1fyc_A Length = 128 Score = 24.5 bits (53), Expect = 5.5 Identities = 7/46 (15%), Positives = 17/46 (36%), Gaps = 1/46 (2%) Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGD-NIRFDNVLAVGKDE 45 + A IE + + KI+ +G ++ L + ++ Sbjct: 60 LLAEIETDKATIGFEVQEEGYLAKILVPEGTRDVPLGTPLCIIVEK 105 >1pmr_A Dihydrolipoyl succinyltransferase; 2-oxoglutarate dehydrogenase, lipoyl domain, complex, glycolysis; NMR {Escherichia coli} SCOP: b.84.1.1 Length = 80 Score = 24.7 bits (54), Expect = 5.5 Identities = 6/39 (15%), Positives = 14/39 (35%) Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41 IE V A+ ++ ++ +G + +L Sbjct: 37 VEIETDKVVLEVPASADGILDAVLEDEGTTVTSRQILGR 75 >1ia5_A Polygalacturonase; glycosylhydrolase; HET: MAN NAG; 2.00A {Aspergillus aculeatus} SCOP: b.80.1.3 PDB: 1ib4_A* Length = 339 Score = 24.2 bits (52), Expect = 7.8 Identities = 5/29 (17%), Positives = 10/29 (34%) Query: 32 NIRFDNVLAVGKDEHLSVGTPRVEGAYVE 60 N+ F + + D + + T V Sbjct: 219 NVTFVDSTIINSDNGVRIKTNIDTTGSVS 247 >2dne_A Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase...; lipoyl domain, lipoic acid, 2-oxoacid dehydrogenase; NMR {Homo sapiens} Length = 108 Score = 24.1 bits (52), Expect = 8.2 Identities = 5/42 (11%), Positives = 17/42 (40%), Gaps = 1/42 (2%) Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGD-NIRFDNVLAV 41 + A +E + + + KI+ +G ++ ++ + Sbjct: 40 LIAEVETDKATVGFESLEECYMAKILVAEGTRDVPIGAIICI 81 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 0.320 0.133 0.363 Gapped Lambda K H 0.267 0.0677 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 853,606 Number of extensions: 35607 Number of successful extensions: 106 Number of sequences better than 10.0: 1 Number of HSP's gapped: 103 Number of HSP's successfully gapped: 33 Length of query: 103 Length of database: 5,693,230 Length adjustment: 68 Effective length of query: 35 Effective length of database: 4,044,638 Effective search space: 141562330 Effective search space used: 141562330 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 50 (23.1 bits)