RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780164|ref|YP_003064577.1| ATP-dependent Clp protease adaptor protein ClpS [Candidatus Liberibacter asiaticus str. psy62] (138 letters) >3dnj_A ATP-dependent CLP protease adapter protein CLPS; adaptor, protein-peptide complex, peptide binding protein; 1.15A {Caulobacter vibrioides} PDB: 3g19_A 3gq0_A 3gq1_A 3gw1_A 3g1b_A Length = 85 Score = 122 bits (309), Expect = 2e-29 Identities = 50/81 (61%), Positives = 64/81 (79%) Query: 57 PKLYRVLLVNDNYTPMEFVIHVLQNFFYKDHETAKCIMLKVHHQGIGECGVYAYEIAEMK 116 P LYRVL++ND+YTPMEFV++VL+ FF K E A IML VH G+G CGVY YE+AE K Sbjct: 4 PSLYRVLILNDDYTPMEFVVYVLERFFNKSREDATRIMLHVHQNGVGVCGVYTYEVAETK 63 Query: 117 VNQVMNYSRQHQYPLQCIMEQ 137 V QV++ +R+HQ+PLQC ME+ Sbjct: 64 VAQVIDSARRHQHPLQCTMEK 84 >2w9r_A YLJA, ATP-dependent CLP protease adapter protein CLPS; chaperone, adaptor protein, DNA condensation, iron, CLPS, CLPA, cytoplasm, N-END RULE; HET: DNA; 1.70A {Escherichia coli} PDB: 2wa9_A 1mbx_C* 1mbv_B 1mbu_C* 1r6o_C* 1r6q_C* 2wa8_A 1mg9_A* 1lzw_A* Length = 108 Score = 119 bits (299), Expect = 3e-28 Identities = 48/99 (48%), Positives = 68/99 (68%), Gaps = 2/99 (2%) Query: 39 EFDNCLDSEVRFSSKVRVPKLYRVLLVNDNYTPMEFVIHVLQNFFYKDHETAKCIMLKVH 98 +FD + +VR ++ P +Y+V+LVND+YTPMEFVI VLQ FF D E A +ML VH Sbjct: 9 DFDQLAEEKVR--DALKPPSMYKVILVNDDYTPMEFVIDVLQKFFSYDVERATQLMLAVH 66 Query: 99 HQGIGECGVYAYEIAEMKVNQVMNYSRQHQYPLQCIMEQ 137 +QG CGV+ E+AE KV V Y+R++++PL C +E+ Sbjct: 67 YQGKAICGVFTAEVAETKVAMVNKYARENEHPLLCTLEK 105 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 28.8 bits (64), Expect = 0.44 Identities = 16/122 (13%), Positives = 43/122 (35%), Gaps = 33/122 (27%) Query: 21 LMSFI-FMADSRMNKKGIAEFDNCLDSEVR-FSSK-VRVPKLYRVL--LVNDNYTPMEFV 75 + F+ +++ + + +FD L+ + F + + ++ + L+ +N T + Sbjct: 61 VGKFLGYVSS-LVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKT 119 Query: 76 IHVLQNFFY----------KDHETAKCIMLKVHHQGIGECGVYA----------Y--EIA 113 +++N+ K +A L G + A Y E+ Sbjct: 120 KELIKNYITARIMAKRPFDKKSNSA----LFRAVGE-GNAQLVAIFGGQGNTDDYFEELR 174 Query: 114 EM 115 ++ Sbjct: 175 DL 176 Score = 26.8 bits (59), Expect = 1.8 Identities = 23/139 (16%), Positives = 42/139 (30%), Gaps = 56/139 (40%) Query: 37 IAEFDNCLDSEVRFSSKVRVPKLYR----VL--LVNDNYTP-MEF---------VIHVLQ 80 I L +R + + K++ +L L N + TP ++ +I V+Q Sbjct: 188 IKFSAETLSELIR--TTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQ 245 Query: 81 NFFYKDHETAKCIMLKVH-------------H-QGIGECGVYA------------YEIAE 114 H +L H QG+ V A + Sbjct: 246 -LA---HYVVTAKLLGFTPGELRSYLKGATGHSQGL----VTAVAIAETDSWESFFVSVR 297 Query: 115 MKVNQVMNY--SRQHQ-YP 130 + V+ + R ++ YP Sbjct: 298 KAI-TVLFFIGVRCYEAYP 315 >2j5l_A Apical membrane antigen 1; malaria vaccine candidate, apical membrane antigen 1, hypothetical protein, immunoglobulin domain; 2.9A {Plasmodium falciparum} SCOP: g.61.1.1 PDB: 1hn6_A Length = 581 Score = 25.7 bits (56), Expect = 4.2 Identities = 5/18 (27%), Positives = 8/18 (44%) Query: 83 FYKDHETAKCIMLKVHHQ 100 D+ KC +L + Q Sbjct: 206 AVYDYNDKKCHILYIAAQ 223 >3eqz_A Response regulator; structural genomics, unknown function, PSI-2, protein structure initiative; 2.15A {Colwellia psychrerythraea 34H} Length = 135 Score = 25.3 bits (55), Expect = 5.3 Identities = 10/76 (13%), Positives = 27/76 (35%) Query: 60 YRVLLVNDNYTPMEFVIHVLQNFFYKDHETAKCIMLKVHHQGIGECGVYAYEIAEMKVNQ 119 RV +V+D+ + +++ F + + + +M + Sbjct: 4 NRVFIVDDDTLTCNLLKTIVEPIFGNVEAFQHPRAFLTLSLNKQDIIILDLMMPDMDGIE 63 Query: 120 VMNYSRQHQYPLQCIM 135 V+ + +H+ P I+ Sbjct: 64 VIRHLAEHKSPASLIL 79 >2x2z_A AMA1, apical membrane antigen 1, putative; membrane protein, invasion, moving junction; HET: NAG; 2.00A {Toxoplasma gondii} Length = 456 Score = 25.2 bits (54), Expect = 5.6 Identities = 6/18 (33%), Positives = 8/18 (44%) Query: 83 FYKDHETAKCIMLKVHHQ 100 F D + C +L V Q Sbjct: 154 FVYDSKKRLCHILYVSMQ 171 >1w8k_A Apical membrane antigen 1; plasmodium antigen, malaria vaccine candidate; 1.8A {Plasmodium vivax} PDB: 1w81_A 2j4w_D Length = 447 Score = 25.3 bits (55), Expect = 5.6 Identities = 5/18 (27%), Positives = 7/18 (38%) Query: 83 FYKDHETAKCIMLKVHHQ 100 D + C ML + Q Sbjct: 143 AVYDEKEKTCHMLYLSAQ 160 >2x1d_A Acyl-coenzyme A\:6-aminopenicillanic-acid-acyltransferase 40 kDa form; zymogen, NTN-hydrolase, penicillin biosynthesis; 1.64A {Penicillium chrysogenum} PDB: 2x1e_A* 2x1c_A Length = 357 Score = 24.4 bits (52), Expect = 9.0 Identities = 10/81 (12%), Positives = 28/81 (34%), Gaps = 5/81 (6%) Query: 4 FDDGSMYHRVKRDG---ILALMSFIFMADSRMNKKGIAEFDNCLDSEVRFSSKVRVPKLY 60 + + +++ G I + + N G+A N L + VP Sbjct: 126 TKENLIRLTIRQAGLPTIKFITEAGIIGKVGFNSAGVAVNYNALHL--QGLRPTGVPSHI 183 Query: 61 RVLLVNDNYTPMEFVIHVLQN 81 + + ++ +P + +++ Sbjct: 184 ALRIALESTSPSQAYDRIVEQ 204 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 0.327 0.139 0.421 Gapped Lambda K H 0.267 0.0483 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,167,138 Number of extensions: 48549 Number of successful extensions: 181 Number of sequences better than 10.0: 1 Number of HSP's gapped: 181 Number of HSP's successfully gapped: 24 Length of query: 138 Length of database: 5,693,230 Length adjustment: 83 Effective length of query: 55 Effective length of database: 3,680,978 Effective search space: 202453790 Effective search space used: 202453790 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 52 (24.4 bits)