RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780256|ref|YP_003064669.1| 50S ribosomal protein L22 [Candidatus Liberibacter asiaticus str. psy62] (131 letters) >3ofq_S 50S ribosomal protein L22; protein biosynthesis, ribosomes, RNA, tRNA, transfer, antibi EXIT, peptidyl, ribosomal subunit, large; 3.10A {Escherichia coli} PDB: 1p85_Q 1p86_Q 1vs8_S 1vs6_S 2aw4_S 2awb_S 1vt2_S 2i2v_S 2j28_S 2i2t_S* 2qao_S* 2qba_S* 2qbc_S* 2qbe_S 2qbg_S 2qbi_S* 2qbk_S* 2qov_S 2qox_S 2qoz_S* ... Length = 110 Score = 127 bits (321), Expect = 9e-31 Identities = 46/108 (42%), Positives = 66/108 (61%) Query: 16 EANAIASMLRVSPQKLNLVAAMIRGKRVSDALADLEFSRKRIAGEVRKTLCSAVANAENN 75 E A R S QK+ LVA +IRGK+VS AL L ++ K+ A V+K L SA+ANAE+N Sbjct: 2 ETIAKHRHARSSAQKVRLVADLIRGKKVSQALDILTYTNKKAAVLVKKVLESAIANAEHN 61 Query: 76 HDLDVDRLIVSEAYVGKSVFMKRFHCRGRQRIGRIVRPFSRLTVIVRE 123 D+D L V++ +V + MKR R + R RI++ S +TV+V + Sbjct: 62 DGADIDDLKVTKIFVDEGPSMKRIMPRAKGRADRILKRTSHITVVVSD 109 >1i4j_A 50S ribosomal protein L22; mutant, erythromycin resistance, RNA binding, RNA binding protein; 1.80A {Thermus thermophilus} SCOP: d.55.1.1 PDB: 1bxe_A 1giy_S 1ml5_s* 1vsa_Q 1vsp_Q 1yl3_S 2b66_W 2b9n_W 2b9p_W 2hgj_V 2hgq_V 2hgu_V 2j01_W 2j03_W 2jl6_W 2jl8_W 2v47_W 2v49_W 2wdi_W 2wdj_W ... Length = 110 Score = 118 bits (299), Expect = 3e-28 Identities = 48/112 (42%), Positives = 63/112 (56%), Gaps = 3/112 (2%) Query: 16 EANAIASMLRVSPQKLNLVAAMIRGKRVSDALADLEFSRKRIAGEVRKTLCSAVANAENN 75 EA AIA +R+SP+K+ LV +IRGK + +A L ++ KR A V K L SA ANA NN Sbjct: 2 EAKAIARYVRISPRKVRLVVDLIRGKSLEEARNILRYTNKRGAYFVAKVLESAAANAVNN 61 Query: 76 HDLDVDRLIVSEAYVGKSVFMKRFHCRGRQRIGRIVRPFSRLTVIVREVSDE 127 HD DRL V AYV + + R R R I + S +TVI+ E + Sbjct: 62 HDALEDRLYVKAAYVDEGPAVLP---RARGRADIIKKRTSHITVILGEKHGK 110 >2zjr_P 50S ribosomal protein L22; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.55.1.1 PDB: 1j5a_L* 1jzy_L* 1jzz_L* 1k01_L* 1nkw_Q 1nwx_Q* 1nwy_Q* 1ond_Q* 1sm1_Q* 1xbp_Q* 2zjp_P* 2zjq_P 1jzx_L 3cf5_P* 3dll_P* 1pnu_Q 1pny_Q 1vor_T 1vou_T 1vow_T ... Length = 134 Score = 116 bits (293), Expect = 1e-27 Identities = 45/125 (36%), Positives = 65/125 (52%) Query: 3 GKRSVSKRRMGDNEANAIASMLRVSPQKLNLVAAMIRGKRVSDALADLEFSRKRIAGEVR 62 K+ ++ A+A +R+SP+K+ LV +IRGK V DA L F + + V Sbjct: 10 NKKQRKQQVKLRKPGFAVAKYVRMSPRKVRLVVDVIRGKSVQDAEDLLRFIPRSASEPVA 69 Query: 63 KTLCSAVANAENNHDLDVDRLIVSEAYVGKSVFMKRFHCRGRQRIGRIVRPFSRLTVIVR 122 K L SA ANA +N ++ DRL V EAYV +KR R R I + S +T+IV Sbjct: 70 KVLNSAKANALHNDEMLEDRLFVKEAYVDAGPTLKRLIPRARGSANIIKKRTSHITIIVA 129 Query: 123 EVSDE 127 E ++ Sbjct: 130 EKGNK 134 >3i1n_S 50S ribosomal protein L22; ribosome structure, protein-RNA complex, acetylation, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA- binding, methylation; 3.19A {Escherichia coli k-12} PDB: 1p85_Q 1p86_Q 1vs8_S 2aw4_S 2awb_S 1vs6_S 2i2v_S 2j28_S 2i2t_S* 2qao_S* 2qba_S* 2qbc_S* 2qbe_S 2qbg_S 2qbi_S* 2qbk_S* 2qov_S 2qox_S 2qoz_S* 2qp1_S* ... Length = 110 Score = 115 bits (289), Expect = 4e-27 Identities = 46/108 (42%), Positives = 66/108 (61%) Query: 16 EANAIASMLRVSPQKLNLVAAMIRGKRVSDALADLEFSRKRIAGEVRKTLCSAVANAENN 75 E A R S QK+ LVA +IRGK+VS AL L ++ K+ A V+K L SA+ANAE+N Sbjct: 2 ETIAKHRHARSSAQKVRLVADLIRGKKVSQALDILTYTNKKAAVLVKKVLESAIANAEHN 61 Query: 76 HDLDVDRLIVSEAYVGKSVFMKRFHCRGRQRIGRIVRPFSRLTVIVRE 123 D+D L V++ +V + MKR R + R RI++ S +TV+V + Sbjct: 62 DGADIDDLKVTKIFVDEGPSMKRIMPRAKGRADRILKRTSHITVVVSD 109 >3bbo_U Ribosomal protein L22; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Length = 199 Score = 111 bits (278), Expect = 6e-26 Identities = 33/113 (29%), Positives = 56/113 (49%) Query: 15 NEANAIASMLRVSPQKLNLVAAMIRGKRVSDALADLEFSRKRIAGEVRKTLCSAVANAEN 74 +E + +S K V IRG+ ++ L LE R + K + SA ANA + Sbjct: 30 DEITTRGYSISMSVDKARRVIDQIRGRSYAETLMILELMPYRACYPIFKLIYSAAANASH 89 Query: 75 NHDLDVDRLIVSEAYVGKSVFMKRFHCRGRQRIGRIVRPFSRLTVIVREVSDE 127 N + LI+S+A V K + +K+ R R R I+RP +T+++R+++ Sbjct: 90 NKQFNKANLIISKAEVNKGITLKKVKPRARGRSYMILRPTCHITIVLRDITHF 142 >2ftc_M Mitochondrial ribosomal protein L22 isoform A; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} PDB: 3iy9_M Length = 110 Score = 100 bits (250), Expect = 1e-22 Identities = 29/102 (28%), Positives = 53/102 (51%), Gaps = 1/102 (0%) Query: 23 MLRVSPQKLNLVAAMIRGKRVSDALADLEFSRKRIAGEVRKTLCSAVANAENNHDLDVDR 82 ++ S K+ +A +IRG + ALA LEF+ K+ A +++ L A A +H+++ Sbjct: 5 QIKYSKDKMWYLAKLIRGMSIDQALAQLEFNDKKGAKIIKEVLLEAQDMAVRDHNVEFRS 64 Query: 83 -LIVSEAYVGKSVFMKRFHCRGRQRIGRIVRPFSRLTVIVRE 123 L ++E+ G+ +KR GR R G + + + V + E Sbjct: 65 NLYIAESTSGRGQCLKRIRYHGRGRFGIMEKVYCHYFVKLVE 106 >1vq8_R 50S ribosomal protein L22P; 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} SCOP: d.55.1.1 PDB: 1vq4_R* 1vq5_R* 1vq6_R* 1vq7_R* 1s72_R* 1vq9_R* 1vqk_R* 1vql_R* 1vqm_R* 1vqn_R* 1vqo_R* 1vqp_R* 1yhq_R* 1yi2_R* 1yij_R* 1yit_R* 1yjn_R* 1yjw_R* 2otj_R* 2otl_R* ... Length = 155 Score = 89.2 bits (221), Expect = 3e-19 Identities = 25/150 (16%), Positives = 46/150 (30%), Gaps = 31/150 (20%) Query: 8 SKRRMGDNEANAIASMLRVSPQKLNLVAAMIRGKRVSDALADLE---------------- 51 S D A A+ ++S + +A I+GK +A+ LE Sbjct: 6 SVEADPDTTAKAMLRERQMSFKHSKAIAREIKGKTAGEAVDYLEAVIEGDQPVPFKQHNS 65 Query: 52 --------------FSRKRIAGEVRKTLCSAVANAENNHDLDVDRLIVSEAYVGKSVFMK 97 ++ + L +AV NA+ + D + + + K + Sbjct: 66 GVGHKSKVDGWDAGRYPEKASKAFLDLLENAVGNAD-HQGFDGEAMTIKHVAAHKVGEQQ 124 Query: 98 RFHCRGRQRIGRIVRPFSRLTVIVREVSDE 127 R R P + +I+ E E Sbjct: 125 GRKPRAMGRASAWNSPQVDVELILEEPEVE 154 >2wwb_I 60S ribosomal protein L17-A; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Triticum aestivum} PDB: 2wwa_I 2ww9_I 1s1i_N Length = 184 Score = 87.3 bits (216), Expect = 9e-19 Identities = 33/146 (22%), Positives = 49/146 (33%), Gaps = 33/146 (22%) Query: 14 DNEANAIASMLRVSPQKLNLVAAMIRGKRVSDALADLE---------------------- 51 A+A S LRVS + A I G ++ A LE Sbjct: 12 AKSASARGSYLRVSFKNTRETAQAINGWELTKAQKYLEQVLDHQRAIPFRRFNSSIGRTA 71 Query: 52 ----------FSRKRIAGEVRKTLCSAVANAENNHDLDVDRLIVSEAYVGKSVFMKRFHC 101 + V+ L +A ANAE LD +L VS V ++ +R Sbjct: 72 QGKEFGVTKARWPAKSVKFVQGLLQNAAANAEAKG-LDATKLYVSHIQVNQAPKQRRRTY 130 Query: 102 RGRQRIGRIVRPFSRLTVIVREVSDE 127 R RI + S + ++V E + Sbjct: 131 RAHGRINKYESSPSHIELVVTEKEEA 156 >2zkr_r 60S ribosomal protein L17; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 184 Score = 84.6 bits (209), Expect = 6e-18 Identities = 30/144 (20%), Positives = 47/144 (32%), Gaps = 33/144 (22%) Query: 16 EANAIASMLRVSPQKLNLVAAMIRGKRVSDALADLE------------------------ 51 + S LRV + A I+G + A L+ Sbjct: 14 SCKSRGSNLRVHFKNTRETAQAIKGMHIRKATKYLKDVTLQKQCVPFRRYNGGVGRCAQA 73 Query: 52 --------FSRKRIAGEVRKTLCSAVANAENNHDLDVDRLIVSEAYVGKSVFMKRFHCRG 103 K+ A + L +A +NAE LDVD L++ V K+ M+R R Sbjct: 74 KQWGWTQGRWPKKSAEFLLHMLKNAESNAELKG-LDVDSLVIEHIQVNKAPKMRRRTYRA 132 Query: 104 RQRIGRIVRPFSRLTVIVREVSDE 127 RI + + +I+ E Sbjct: 133 HGRINPYMSSPCHIEMILTEKEQI 156 >1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154 Score = 27.3 bits (59), Expect = 1.2 Identities = 7/28 (25%), Positives = 14/28 (50%), Gaps = 8/28 (28%) Query: 4 KRSVSK-----RRMGDNEANAI---ASM 23 K+++ K + D+ A A+ A+M Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKATM 46 >2w7n_A TRFB transcriptional repressor protein; INCP, plasmid, repressor, DNA-binding, transcription/DNA; HET: BRU; 1.85A {Escherichia coli} Length = 101 Score = 26.7 bits (59), Expect = 1.6 Identities = 10/56 (17%), Positives = 24/56 (42%), Gaps = 1/56 (1%) Query: 9 KRRMGDNEANAIASMLRVSPQKLNLV-AAMIRGKRVSDALADLEFSRKRIAGEVRK 63 K+R+ +++ L V Q + + ++ GK + L +R ++ V + Sbjct: 2 KKRLTESQFQEAIQGLEVGQQTIEIARGVLVDGKPQATFATSLGLTRGAVSQAVHR 57 >2r8o_A Transketolase 1, TK 1; reaction intermediate, calcium, metal-binding, thiamine pyrophosphate, transferase; HET: T5X; 1.47A {Escherichia coli K12} SCOP: c.36.1.6 c.36.1.10 c.48.1.1 PDB: 2r5n_A* 2r8p_A* 1qgd_A* Length = 669 Score = 24.9 bits (53), Expect = 6.6 Identities = 9/24 (37%), Positives = 13/24 (54%) Query: 53 SRKRIAGEVRKTLCSAVANAENNH 76 SRK +A +R AV A++ H Sbjct: 3 SRKELANAIRALSMDAVQKAKSGH 26 >3kfu_F Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase; ASPRS, gatcab, ATP-binding, aminoacyl-tRNA synthetase, ligas nucleotide-binding, protein biosynthesis, ligase-RNA comple; HET: H2U 5MU PSU; 3.00A {Thermus thermophilus} Length = 466 Score = 24.5 bits (53), Expect = 7.1 Identities = 7/34 (20%), Positives = 14/34 (41%) Query: 15 NEANAIASMLRVSPQKLNLVAAMIRGKRVSDALA 48 +E R+SP+ L + + V+ +A Sbjct: 348 HERGLRLEETRLSPEGLARLVGLFERGEVTSRVA 381 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 0.322 0.134 0.365 Gapped Lambda K H 0.267 0.0710 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,058,186 Number of extensions: 45301 Number of successful extensions: 231 Number of sequences better than 10.0: 1 Number of HSP's gapped: 226 Number of HSP's successfully gapped: 18 Length of query: 131 Length of database: 5,693,230 Length adjustment: 82 Effective length of query: 49 Effective length of database: 3,705,222 Effective search space: 181555878 Effective search space used: 181555878 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 (22.0 bits) S2: 51 (23.5 bits)