RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780293|ref|YP_003064706.1| 30S ribosomal protein S9 [Candidatus Liberibacter asiaticus str. psy62] (170 letters) >3i1m_I 30S ribosomal protein S9; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_I* 3e1a_W 3e1c_W 1vs5_I 3i1o_I 3i1q_I 3i1s_I 3i1z_I 3i21_I 2qal_I* 1p6g_I 1p87_I 2aw7_I 2avy_I 2i2u_I 2i2p_I* 2qan_I* 2qb9_I* 2qbb_I* 2qbd_I ... (I:) Length = 130 Score = 162 bits (411), Expect = 3e-41 Identities = 60/127 (47%), Positives = 84/127 (66%) Query: 44 QRSYATGKRKTSIARVWIKSGSGKFTINYVDISKYFTQDLLVLNIKRPFNTVSQDNMYDV 103 + Y TG+RK+S ARV+IK G+GK IN + +YF ++ + +++P V D+ Sbjct: 4 NQYYGTGRRKSSAARVFIKPGNGKIVINQRSLEQYFGRETARMVVRQPLELVDMVEKLDL 63 Query: 104 FATVSGGGLSGQASAICHGVAKALTYFQPDLRPQIKKGGFLTRDSRIVERKKYGKAKARR 163 + TV GGG+SGQA AI HG+ +AL + LR +++K GF+TRD+R VERKK G KARR Sbjct: 64 YITVKGGGISGQAGAIRHGITRALMEYDESLRSELRKAGFVTRDARQVERKKVGLRKARR 123 Query: 164 SFQFSKR 170 QFSKR Sbjct: 124 RPQFSKR 130 >2vqe_I 30S ribosomal protein S9, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} (I:) Length = 128 Score = 159 bits (405), Expect = 1e-40 Identities = 60/127 (47%), Positives = 85/127 (66%) Query: 44 QRSYATGKRKTSIARVWIKSGSGKFTINYVDISKYFTQDLLVLNIKRPFNTVSQDNMYDV 103 ++ Y TG+RK ++ARV+++ G+GK T+N D ++YF + + P V +D Sbjct: 2 EQYYGTGRRKEAVARVFLRPGNGKVTVNGQDFNEYFQGLVRAVAALEPLRAVDALGRFDA 61 Query: 104 FATVSGGGLSGQASAICHGVAKALTYFQPDLRPQIKKGGFLTRDSRIVERKKYGKAKARR 163 + TV GGG SGQ AI G+A+AL + PD R ++K GFLTRD+R+VERKKYGK KARR Sbjct: 62 YITVRGGGKSGQIDAIKLGIARALVQYNPDYRAKLKPLGFLTRDARVVERKKYGKHKARR 121 Query: 164 SFQFSKR 170 + Q+SKR Sbjct: 122 APQYSKR 128 >3bbn_I Ribosomal protein S9; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} (I:) Length = 197 Score = 154 bits (391), Expect = 5e-39 Identities = 64/171 (37%), Positives = 89/171 (52%), Gaps = 1/171 (0%) Query: 1 MEDIENIRDIIEQQGGTLTEENTSQPEETSSSPAIHSRKVDQWQRSYATGKRKTSIARVW 60 + + ++ ++ ++ + Q TG+RK +IARV Sbjct: 27 LSNPAVVKPLVITATSATAPVEVAETADLEKFVKSRLPGGFAAQTVIGTGRRKCAIARVV 86 Query: 61 IKSGSGKFTINYVDISKYFTQDL-LVLNIKRPFNTVSQDNMYDVFATVSGGGLSGQASAI 119 ++ G+GKF INY D +Y + + +K P T+ + YDVF GGGLSGQA AI Sbjct: 87 LQEGTGKFIINYRDAKEYLQGNPLWLQYVKTPLATLGYETNYDVFVKAHGGGLSGQAQAI 146 Query: 120 CHGVAKALTYFQPDLRPQIKKGGFLTRDSRIVERKKYGKAKARRSFQFSKR 170 GVA+AL R +K+ G LTRDSRIVERKK G KAR++ QFSKR Sbjct: 147 SLGVARALLKVSASHRAPLKQEGLLTRDSRIVERKKPGLKKARKAPQFSKR 197 >2zkq_i 40S ribosomal protein S16E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} (i:) Length = 146 Score = 149 bits (378), Expect = 2e-37 Identities = 35/144 (24%), Positives = 51/144 (35%), Gaps = 12/144 (8%) Query: 39 KVDQWQRSYATGKRKTSIARVWIKSGSGKFTINYVDISKYFTQDLLVLN-IKRPFNTVSQ 97 Q G++KT+ A K G+G +N + + L + Sbjct: 3 SKGPLQSVQVFGRKKTATAVAHCKRGNGLIKVNGRPLEMIEPRTLQYKLLEPVLLLGKER 62 Query: 98 DNMYDVFATVSGGGLSGQASAICHGVAKALTYFQPD-----LRPQIKKG------GFLTR 146 D+ V GGG Q AI ++KAL + + +IK L Sbjct: 63 FAGVDIRVRVKGGGHVAQIYAIRQSISKALVAYYQKYVDEASKKEIKDILIQYDRTLLVA 122 Query: 147 DSRIVERKKYGKAKARRSFQFSKR 170 D R E KK+G AR +Q S R Sbjct: 123 DPRRCESKKFGGPGARARYQKSYR 146 >3jyv_I 40S ribosomal protein S16(A); eukaryotic ribosome, RACK1 protein, flexible fitting; HET: 2MG H2U M2G OMC OMG YYG PSU 5MC 7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus} PDB: 1s1h_I (I:) Length = 138 Score = 140 bits (355), Expect = 8e-35 Identities = 38/136 (27%), Positives = 57/136 (41%), Gaps = 12/136 (8%) Query: 47 YATGKRKTSIARVWIKSGSGKFTINYVDISKYFTQDL-LVLNIKRPFNTVSQDNMYDVFA 105 GK+K++ A +K+G G +N I+ + L + + + + D+ Sbjct: 3 QTFGKKKSATAVAHVKAGKGLIKVNGSPITLVEPEILRFKVYEPLLLVGLDKFSNIDIRV 62 Query: 106 TVSGGGLSGQASAICHGVAKAL-----TYFQPDLRPQIKKG------GFLTRDSRIVERK 154 V+GGG Q AI +AK L Y + ++KK L DSR E K Sbjct: 63 RVTGGGHVSQVYAIRQAIAKGLVAYHQKYVDEQSKNELKKAFTSYDRTLLIADSRRPEPK 122 Query: 155 KYGKAKARRSFQFSKR 170 K+G AR FQ S R Sbjct: 123 KFGGKGARSRFQKSYR 138 >3ebk_A Allergen BLA G 4; beta barrel, cockroach, glycoprotein, secreted; 1.90A {Blattella germanica} (A:) Length = 176 Score = 28.9 bits (64), Expect = 0.39 Identities = 25/87 (28%), Positives = 38/87 (43%), Gaps = 12/87 (13%) Query: 48 ATGKRKTSIARVWIKSGSGKFTINYVDISKYFTQDLLVLNIKRPFNTVSQDNMYDVFATV 107 + GK +T+I R K KFTI+Y D K F+ P++ ++ D Y+ +A V Sbjct: 62 SQGKNRTTI-RGRTKFEGNKFTIDYNDKGKAFSA---------PYSVLATD--YENYAIV 109 Query: 108 SGGGLSGQASAICHGVAKALTYFQPDL 134 G + I + L F P L Sbjct: 110 EGCPAAANGHVIYVQLRMTLRRFHPKL 136 >3dzc_A UDP-N-acetylglucosamine 2-epimerase; structural genomics, infectious diseases, isomerase; 2.35A {Vibrio cholerae} (A:1-196,A:382-396) Length = 211 Score = 27.2 bits (60), Expect = 1.4 Identities = 11/34 (32%), Positives = 18/34 (52%) Query: 101 YDVFATVSGGGLSGQASAICHGVAKALTYFQPDL 134 +D+ G L+G S I G+ + L+ QPD+ Sbjct: 81 FDLNIMEPGQTLNGVTSKILLGMQQVLSSEQPDV 114 >2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A (A:655-778,A:874-986) Length = 237 Score = 26.1 bits (58), Expect = 2.3 Identities = 8/56 (14%), Positives = 19/56 (33%), Gaps = 4/56 (7%) Query: 48 ATGKRKTSIARV---WIKSGSGKFTINYVDISKYFTQDLLVLNIKRPFNTVSQDNM 100 G K+++ V + SG+ + Y Q +I+ + + + Sbjct: 53 PNGAGKSTLINVLTGELLPTSGEVYTHENCRIAYIKQHAF-AHIESHLDKTPSEYI 107 >1b6c_B TGF-B superfamily receptor type I; complex (isomerase/protein kinase), receptor serine/threonine kinase; 2.60A {Homo sapiens} (B:124-342) Length = 219 Score = 25.7 bits (55), Expect = 3.1 Identities = 6/47 (12%), Positives = 15/47 (31%), Gaps = 1/47 (2%) Query: 102 DVFATVSGGGLS-GQASAICHGVAKALTYFQPDLRPQIKKGGFLTRD 147 +F ++ ++ + A L + ++ K RD Sbjct: 3 SLFDYLNRYTVTVEGMIKLALSTASGLAHLHMEIVGTQGKPAIAHRD 49 >1nir_A Nitrite reductase; hemoprotein, denitrification, domain swapping; HET: HEC DHE; 2.15A {Pseudomonas aeruginosa} (A:1-115) Length = 115 Score = 25.4 bits (55), Expect = 4.6 Identities = 11/62 (17%), Positives = 19/62 (30%), Gaps = 4/62 (6%) Query: 109 GGGLSGQASAICHGVAKALTYFQPDLRPQIKKGGFLTRDSRIVERKKYGKAKARRSFQFS 168 + Q A CHGV + +P ++ G + YG ++ S Sbjct: 39 AKQIYFQRCAGCHGVLRKGATGKPLTPDITQQRG----QQYLEALITYGTPLGMPNWGSS 94 Query: 169 KR 170 Sbjct: 95 GE 96 >1wtj_A Ureidoglycolate dehydrogenase; NADPH dependent enzyme, oxidoreductase; 1.55A {Pseudomonas syringae PV} PDB: 2cwf_A* 2cwh_A* (A:1-71,A:310-343) Length = 105 Score = 24.8 bits (54), Expect = 5.8 Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 8/44 (18%) Query: 112 LSGQASAICHGVAKALTYFQPDLRPQIKKGGFLTRDSRIVERKK 155 G S HG+ + Y + G L D R +ER + Sbjct: 48 RDGSHS---HGIFRIPGYLS-----SLASGWVLPGDRRYLERAR 83 >1vpk_A DNA polymerase III, beta subunit; TM0262, structural genomics, joint center for structural genomics, JCSG, protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima MSB8} (A:1-143,A:208-255) Length = 191 Score = 24.8 bits (54), Expect = 6.8 Identities = 6/21 (28%), Positives = 10/21 (47%) Query: 58 RVWIKSGSGKFTINYVDISKY 78 + I SGS F I + ++ Sbjct: 107 ALVISSGSTVFRITTMPADEF 127 >3btp_A Single-strand DNA-binding protein; TIM barrel, unique topology, novel fold, structural genomics, israel structural proteomics center, ISPC; 2.30A {Agrobacterium tumefaciens str} (A:1-341) Length = 341 Score = 24.6 bits (53), Expect = 7.7 Identities = 8/47 (17%), Positives = 24/47 (51%) Query: 122 GVAKALTYFQPDLRPQIKKGGFLTRDSRIVERKKYGKAKARRSFQFS 168 G+ ++Q D ++ + L + R ++ +KYG+ + ++ ++ Sbjct: 207 GITGTDIFYQTDKNIKLDRNYKLRPEDRYIQTEKYGRREIQKRYEHQ 253 >2nra_C PI protein; protein-DNA complex, DNA replication, replication/DNA complex; 3.10A {Escherichia coli} (C:1-167) Length = 167 Score = 24.5 bits (53), Expect = 7.8 Identities = 7/45 (15%), Positives = 14/45 (31%) Query: 125 KALTYFQPDLRPQIKKGGFLTRDSRIVERKKYGKAKARRSFQFSK 169 + + K D I+E Y + S +F++ Sbjct: 95 DIIALAKELNLLSTAKNSSEELDLNIIEWIAYSPDEGYLSLKFTR 139 >1fn9_A Outer-capsid protein sigma 3; zinc binding motif, viral protein; 1.80A {Reovirus SP} (A:1-22,A:73-365) Length = 315 Score = 24.6 bits (53), Expect = 8.0 Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 4/43 (9%) Query: 2 EDIENIRDIIEQQGGTLTEENTSQPEETSSSPAIHSRKVDQWQ 44 +D++ +R +GG+L E N Q + S +IHS D Q Sbjct: 66 DDLDRVR----TEGGSLVELNWLQVDPNSMFRSIHSSWTDPLQ 104 >1v4v_A UDP-N-acetylglucosamine 2-epimerase; UDP-GLCNAC, two domains, homodimer, riken structural genomics/proteomics initiative, RSGI; HET: MSE; 1.80A {Thermus thermophilus} (A:1-176,A:349-376) Length = 204 Score = 24.1 bits (52), Expect = 9.9 Identities = 7/34 (20%), Positives = 11/34 (32%) Query: 101 YDVFATVSGGGLSGQASAICHGVAKALTYFQPDL 134 ++ L A+ I A+AL D Sbjct: 61 RNLDVXQERQALPDLAARILPQAARALKEXGADY 94 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 0.316 0.131 0.374 Gapped Lambda K H 0.267 0.0604 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 1,237,593 Number of extensions: 50850 Number of successful extensions: 149 Number of sequences better than 10.0: 1 Number of HSP's gapped: 144 Number of HSP's successfully gapped: 20 Length of query: 170 Length of database: 4,956,049 Length adjustment: 82 Effective length of query: 88 Effective length of database: 2,184,039 Effective search space: 192195432 Effective search space used: 192195432 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 (23.7 bits)