RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780423|ref|YP_003064836.1| S-adenosylmethionine synthetase [Candidatus Liberibacter asiaticus str. psy62] (413 letters) >1p7l_A S-adenosylmethionine synthetase; AMPPNP, SAM, transferase; HET: SAM ANP PPK; 2.50A {Escherichia coli} (A:99-132,A:233-383) Length = 185 Score = 213 bits (543), Expect = 4e-56 Identities = 89/154 (57%), Positives = 107/154 (69%), Gaps = 5/154 (3%) Query: 259 GGPCSDAGLTGRKIIVDTYGGASPHGGGAFSGKDITKVDRAAAYAARYLAKNIVAAGLAD 318 GGP D GLTGRKIIVDTYGG + HGGGAFSGKD +KVDR+AAYAARY+AKNIVAAGLAD Sbjct: 35 GGPMGDCGLTGRKIIVDTYGGMARHGGGAFSGKDPSKVDRSAAYAARYVAKNIVAAGLAD 94 Query: 319 RCTIQLSYAIGISRPLSIFVDLHDSGKVSESCVANAINKVMDLSVSGIRDHLNLSRPIYA 378 RC IQ+SYAIG++ P SI V+ + KV + + + DL G+ L+L PIY Sbjct: 95 RCEIQVSYAIGVAEPTSIMVETFGTEKVPSEQLTLLVREFFDLRPYGLIQMLDLLHPIYK 154 Query: 379 QTSAYGHFGRSANQDGFFPWEALDLIEPLKKAIG 412 +T+AYGHFGR FPWE D + L+ A G Sbjct: 155 ETAAYGHFGRE-----HFPWEKTDKAQLLRDAAG 183 Score = 55.3 bits (133), Expect = 1e-08 Identities = 21/40 (52%), Positives = 22/40 (55%), Gaps = 2/40 (5%) Query: 121 SSDIAYGVDNASDDCSTLGAGDQGIMFGYACRETADFMPA 160 S DI GVD A GAGDQG+MFGYA ET P Sbjct: 1 SPDINQGVDRADPL--EQGAGDQGLMFGYATNETDVGGPM 38 >3iml_A S-adenosylmethionine synthetase; structural genomics, ATP- binding, cobalt, cytoplasm, magnesium, metal-binding, nucleotide-binding; 2.35A {Burkholderia pseudomallei} (A:116-140,A:241-399) Length = 184 Score = 212 bits (541), Expect = 7e-56 Identities = 90/154 (58%), Positives = 110/154 (71%), Gaps = 3/154 (1%) Query: 259 GGPCSDAGLTGRKIIVDTYGGASPHGGGAFSGKDITKVDRAAAYAARYLAKNIVAAGLAD 318 GGP D GLTGRKIIVDTYGGA+PHGGGAFSGKD +KVDR+AAYA RY+AKNIVAAGLA Sbjct: 26 GGPQGDCGLTGRKIIVDTYGGAAPHGGGAFSGKDPSKVDRSAAYAGRYVAKNIVAAGLAS 85 Query: 319 RCTIQLSYAIGISRPLSIFVDLHDSGKVSESCVANAINKVMDLSVSGIRDHLNLSRPIYA 378 R IQ+SYAIG++ P S+ V+ +G+VS+ + + + DL GI L+L RPIY Sbjct: 86 RALIQVSYAIGVAEPTSVMVNTFGTGRVSDETITKLVREHFDLRPKGIIQMLDLLRPIYE 145 Query: 379 QTSAYGHFGRSANQDGFFPWEALDLIEPLKKAIG 412 +T+AYGHFGR + F WEA D L +A G Sbjct: 146 KTAAYGHFGRE---EPEFSWEAADKALALAEAAG 176 Score = 45.3 bits (107), Expect = 1e-05 Identities = 16/28 (57%), Positives = 19/28 (67%) Query: 133 DDCSTLGAGDQGIMFGYACRETADFMPA 160 D+ GAGDQG+MFGYAC ET + P Sbjct: 2 DNNLDQGAGDQGLMFGYACDETPEGGPQ 29 >2p02_A S-adenosylmethionine synthetase isoform type-2; structural genomics, structural genomics consortium, SGC, transferase; HET: SAM; 1.21A {Homo sapiens} (A:115-149,A:254-396) Length = 178 Score = 200 bits (511), Expect = 2e-52 Identities = 80/147 (54%), Positives = 101/147 (68%), Gaps = 5/147 (3%) Query: 259 GGPCSDAGLTGRKIIVDTYGGASPHGGGAFSGKDITKVDRAAAYAARYLAKNIVAAGLAD 318 GGP DAGLTGRKIIVDTYGG HGGGAFSGKD TKVDR+AAYAAR++AK++V GL Sbjct: 36 GGPQGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDYTKVDRSAAYAARWVAKSLVKGGLCR 95 Query: 319 RCTIQLSYAIGISRPLSIFVDLHDSGKVSESCVANAINKVMDLSVSGIRDHLNLSRPIYA 378 R +Q+SYAIG+S PLSI + + + + SE + + K DL I L+L +PIY Sbjct: 96 RVLVQVSYAIGVSHPLSISIFHYGTSQKSERELLEIVKKNFDLRPGVIVRDLDLKKPIYQ 155 Query: 379 QTSAYGHFGRSANQDGFFPWEALDLIE 405 +T+AYGHFGR + FPWE ++ Sbjct: 156 RTAAYGHFGRDS-----FPWEVPKKLK 177 Score = 53.7 bits (129), Expect = 4e-08 Identities = 20/40 (50%), Positives = 24/40 (60%), Gaps = 1/40 (2%) Query: 121 SSDIAYGVDNASDDCSTLGAGDQGIMFGYACRETADFMPA 160 S DIA GV + +GAGDQG+MFGYA ET + P Sbjct: 1 SPDIAQGVH-LDRNEEDIGAGDQGLMFGYATDETEEGGPQ 39 >1p7l_A S-adenosylmethionine synthetase; AMPPNP, SAM, transferase; HET: SAM ANP PPK; 2.50A {Escherichia coli} (A:1-13,A:133-232) Length = 113 Score = 117 bits (296), Expect = 2e-27 Identities = 42/102 (41%), Positives = 61/102 (59%), Gaps = 2/102 (1%) Query: 157 FMPAPIYYAHRILRTLADARKNSGGDVSKLGPDAKSQVTIRYVDNKVCEVKSIVLSIQHF 216 MPAPI YAHR+++ A+ RKN G + L PDAKSQVT +Y D K+ + ++VLS QH Sbjct: 14 LMPAPITYAHRLVQRQAEVRKN--GTLPWLRPDAKSQVTFQYDDGKIVGIDAVVLSTQHS 71 Query: 217 DPTWDRGKVRSVVEPYILKALEDIKISPDCSWYINPAGKFVI 258 + + +V+E I L ++ ++INP G+FVI Sbjct: 72 EEIDQKSLQEAVMEEIIKPILPAEWLTSATKFFINPTGRFVI 113 >3iml_A S-adenosylmethionine synthetase; structural genomics, ATP- binding, cobalt, cytoplasm, magnesium, metal-binding, nucleotide-binding; 2.35A {Burkholderia pseudomallei} (A:1-19,A:141-240) Length = 119 Score = 113 bits (285), Expect = 3e-26 Identities = 40/102 (39%), Positives = 57/102 (55%), Gaps = 2/102 (1%) Query: 157 FMPAPIYYAHRILRTLADARKNSGGDVSKLGPDAKSQVTIRYVDNKVCEVKSIVLSIQHF 216 MP PI+ +HR++ A+ R++ G + L PDAKSQVT+RYVD K + ++VLS QH Sbjct: 20 LMPLPIHLSHRLVERQANLRRD--GRLPWLRPDAKSQVTVRYVDGKPHSIDTVVLSTQHA 77 Query: 217 DPTWDRGKVRSVVEPYILKALEDIKISPDCSWYINPAGKFVI 258 +V+E I L I D + +NP G+FVI Sbjct: 78 PEIDLPALREAVIEEVIKPTLPADLIKGDIKFLVNPTGRFVI 119 Score = 26.3 bits (58), Expect = 7.1 Identities = 12/15 (80%), Positives = 14/15 (93%) Query: 1 MSADFLFTSESVSEG 15 M+ D+LFTSESVSEG Sbjct: 5 MANDYLFTSESVSEG 19 >2p02_A S-adenosylmethionine synthetase isoform type-2; structural genomics, structural genomics consortium, SGC, transferase; HET: SAM; 1.21A {Homo sapiens} (A:1-29,A:150-253) Length = 133 Score = 107 bits (270), Expect = 2e-24 Identities = 32/106 (30%), Positives = 57/106 (53%), Gaps = 6/106 (5%) Query: 157 FMPAPIYYAHRILRTLADARKNSGGDVSKLGPDAKSQVTIRYVDNKV----CEVKSIVLS 212 MP I AH++ LA+ R+N G + L PD+K+QVT++Y+ ++ V +IV+S Sbjct: 30 CMPLTIVLAHKLNAKLAELRRN--GTLPWLRPDSKTQVTVQYMQDRGAVLPIRVHTIVIS 87 Query: 213 IQHFDPTWDRGKVRSVVEPYILKALEDIKISPDCSWYINPAGKFVI 258 +QH + ++ E I + + D +++ P+G+FVI Sbjct: 88 VQHDEEVCLDEMRDALKEKVIKAVVPAKYLDEDTIYHLQPSGRFVI 133 >3iml_A S-adenosylmethionine synthetase; structural genomics, ATP- binding, cobalt, cytoplasm, magnesium, metal-binding, nucleotide-binding; 2.35A {Burkholderia pseudomallei} (A:20-115) Length = 96 Score = 99.1 bits (247), Expect = 9e-22 Identities = 37/118 (31%), Positives = 51/118 (43%), Gaps = 24/118 (20%) Query: 16 HPDKICDRISDEIVDLVYREAIESKMDVNSVRVACEVLVTKNKVIVAGEVRLPHGLSKKD 75 HPDK+ D+ISD I+D + + S RVA E L V++AGE+ Sbjct: 1 HPDKVADQISDAILDAILAQDKYS-------RVAAETLCNTGLVVLAGEITTT------- 46 Query: 76 SITGQYVVDKEKFEKVVRSVIRSIGYEQE--GFHWETVDVEVLLHSQSSDIAYGVDNA 131 + ++ R I+ IGY+ G + V V QS DIA GVD A Sbjct: 47 --------ANIDYIQIARDTIKRIGYDNTDYGIDYRGCAVLVAYDKQSPDIAQGVDRA 96 >2p02_A S-adenosylmethionine synthetase isoform type-2; structural genomics, structural genomics consortium, SGC, transferase; HET: SAM; 1.21A {Homo sapiens} (A:30-114) Length = 85 Score = 91.8 bits (228), Expect = 1e-19 Identities = 33/107 (30%), Positives = 54/107 (50%), Gaps = 24/107 (22%) Query: 16 HPDKICDRISDEIVDLVYREAIESKMDVNSVRVACEVLVTKNKVIVAGEVRLPHGLSKKD 75 HPDKICD+ISD ++D ++ D ++ +VACE + +++AGE+ Sbjct: 1 HPDKICDQISDAVLDAHLQQ------DPDA-KVACETVAKTGMILLAGEITSR------- 46 Query: 76 SITGQYVVDKEKFEKVVRSVIRSIGYEQE--GFHWETVDVEVLLHSQ 120 ++KVVR ++ IGY+ GF ++T +V V L Q Sbjct: 47 --------AAVDYQKVVREAVKHIGYDDSSKGFDYKTCNVLVALEQQ 85 >1p7l_A S-adenosylmethionine synthetase; AMPPNP, SAM, transferase; HET: SAM ANP PPK; 2.50A {Escherichia coli} (A:14-98) Length = 85 Score = 90.6 bits (225), Expect = 3e-19 Identities = 31/107 (28%), Positives = 45/107 (42%), Gaps = 24/107 (22%) Query: 16 HPDKICDRISDEIVDLVYREAIESKMDVNSVRVACEVLVTKNKVIVAGEVRLPHGLSKKD 75 HPDKI D+ISD ++D + + D + RVACE V V+V GE+ Sbjct: 1 HPDKIADQISDAVLDAILEQ------DPKA-RVACETYVKTGMVLVGGEITTS------- 46 Query: 76 SITGQYVVDKEKFEKVVRSVIRSIGYEQE--GFHWETVDVEVLLHSQ 120 E++ R+ +R IGY GF + V + Q Sbjct: 47 --------AWVDIEEITRNTVREIGYVHSDMGFDANSCAVLSAIGKQ 85 >2o9u_X Monellin chain B and monellin chain A; alternative conformations, 3-10 polyproline II helix, plant protein; 1.15A {Dioscoreophyllum cumminsii} (X:) Length = 97 Score = 29.3 bits (65), Expect = 1.0 Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 11/70 (15%) Query: 79 GQYVVDKEK---------FEKVVRSVIRSIGYEQEGFHWETVDVEVLLHSQSSDIAYGVD 129 G++ VD+E F KV+R ++ YE EGF E E L+ +SD + D Sbjct: 17 GKFAVDEENKIGQYGRLTFNKVIRPCMKKTIYENEGFR-EIKGYEYQLYVYASDKLFRAD 75 Query: 130 NASDDCSTLG 139 S+D T G Sbjct: 76 -ISEDYKTRG 84 >3gju_A Putative aminotransferase; NP_107505.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE LLP PLP; 1.55A {Mesorhizobium loti MAFF303099} PDB: 3fcr_A* (A:111-326) Length = 216 Score = 28.4 bits (62), Expect = 1.7 Identities = 8/55 (14%), Positives = 14/55 (25%), Gaps = 4/55 (7%) Query: 236 ALEDIKISPDCSWYINPAGKFVIGGPCSDAGLTGRKIIVDTYGGASPHGGGAFSG 290 + I PD A K + +G+ + S G+ Sbjct: 165 GSDHYGIKPDLITI---AXKGLTSAYAPLSGVIVADRVWQVLVQGSDK-LGSLGH 215 >1u04_A Argonaute, hypothetical protein PF0537; RNAI, silencing, PIWI, PAZ, RISC, slicer, RNAse H, hydrolase/gene regulation complex; 2.25A {Pyrococcus furiosus dsm 3638} (A:1-9,A:313-328,A:551-771) Length = 246 Score = 27.3 bits (60), Expect = 3.6 Identities = 6/11 (54%), Positives = 10/11 (90%) Query: 158 MPAPIYYAHRI 168 +PAP++YAH+ Sbjct: 213 LPAPVHYAHKF 223 >1ted_A PKS18; thiolase fold, substrate binding tunnel, transferase; HET: MYR; 2.25A {Mycobacterium tuberculosis H37RV} (A:) Length = 393 Score = 27.4 bits (59), Expect = 3.6 Identities = 4/32 (12%), Positives = 12/32 (37%) Query: 118 HSQSSDIAYGVDNASDDCSTLGAGDQGIMFGY 149 + S + + ++ + A G+ F + Sbjct: 346 NMLSVSLIFVLETMVQQAESAKAISTGVAFAF 377 >1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} (A:193-281) Length = 89 Score = 27.1 bits (60), Expect = 4.0 Identities = 8/56 (14%), Positives = 16/56 (28%) Query: 303 AARYLAKNIVAAGLADRCTIQLSYAIGISRPLSIFVDLHDSGKVSESCVANAINKV 358 + +A A D AI I + + ++ V + +V Sbjct: 27 ILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKEV 82 >1epw_A Bontoxilysin B, botulinum neurotoxin type B; zinc, metalloprotease, transmembrane, hydrolase; 1.90A {Clostridium botulinum} (A:78-132,A:196-424) Length = 284 Score = 26.7 bits (59), Expect = 4.9 Identities = 9/25 (36%), Positives = 17/25 (68%), Gaps = 1/25 (4%) Query: 74 KDSITGQYVVDKEKFEKVVRSVIRS 98 +DS G+Y +D E F+K+ +S++ Sbjct: 191 EDS-EGKYSIDVESFDKLYKSLMFG 214 >3ho1_A Argonaute; argonaute, protein-DNA-RNA complex, plasmid; 2.60A {Thermus thermophilus HB27} PDB: 3dlb_A* 3dlh_A* 3f73_A* 3hm9_A 3hvr_A 3hxm_A* 3hk2_A 3hjf_A (A:1-12,A:309-318,A:470-685) Length = 238 Score = 26.9 bits (59), Expect = 5.0 Identities = 5/11 (45%), Positives = 9/11 (81%) Query: 158 MPAPIYYAHRI 168 +PAP++ A R+ Sbjct: 205 LPAPLHLADRL 215 >1se9_A Ubiquitin family; ubiquitin-like, cell-free, wheat GERM, structural genomics, protein structure initiative, CESG; NMR {Arabidopsis thaliana} (A:) Length = 126 Score = 26.7 bits (58), Expect = 5.6 Identities = 7/83 (8%), Positives = 17/83 (20%), Gaps = 7/83 (8%) Query: 186 LGPDAKSQVTIRYVDNKVCEVKSIVLSIQHFDPTWDRGKVRSVVEPYILKALEDIKISPD 245 + ++ R D K+ ++ V + E+ + Sbjct: 11 AEVHNQLEIKFRLTDGSDIGPKAF-------PDATTVSALKETVISEWPREKENGPKTVK 63 Query: 246 CSWYINPAGKFVIGGPCSDAGLT 268 I+ D Sbjct: 64 EVKLISAGKVLENSKTVKDYRSP 86 >2w42_A PIWI, putative uncharacterized protein; RNAI, RISC, argonaute, PIWI domain, protein/DNA complex; 1.90A {Archaeoglobus fulgidus} PDB: 1ytu_A 2bgg_A 1w9h_A (A:177-427) Length = 251 Score = 26.6 bits (58), Expect = 5.8 Identities = 2/11 (18%), Positives = 5/11 (45%) Query: 158 MPAPIYYAHRI 168 +P + Y + Sbjct: 211 LPVTVNYPKLV 221 >1yvu_A Hypothetical protein AQ_1447; RNAse H fold, RNA binding protein, gene regulation; 2.90A {Aquifex aeolicus VF5} (A:1-8,A:308-318,A:493-706) Length = 233 Score = 26.5 bits (58), Expect = 5.9 Identities = 4/11 (36%), Positives = 9/11 (81%) Query: 158 MPAPIYYAHRI 168 +PA ++Y+ +I Sbjct: 202 LPATVHYSDKI 212 >2phj_A 5'-nucleotidase SURE; SURE protein, putative acid phosphatase, structural genomics, 3-D structure, mixed alpha/beta protein, NPPSFA; 1.50A {Aquifex aeolicus VF5} (A:) Length = 251 Score = 26.5 bits (58), Expect = 6.4 Identities = 18/89 (20%), Positives = 35/89 (39%), Gaps = 11/89 (12%) Query: 298 RAAAYAARYLAKNIVAAGLADRCTIQLSYAIGISRPLSIF-VDLHDSGKVSES---CVAN 353 A A + L + +V A + + +++ + PL + +D + + CV Sbjct: 18 NALREALKSLGRVVVVAPDRNLS--GVGHSLTFTEPLKMRKIDTDFYTVIDGTPADCVHL 75 Query: 354 AINKVM-----DLSVSGIRDHLNLSRPIY 377 ++ DL +SGI + NL I Sbjct: 76 GYRVILEEKKPDLVLSGINEGPNLGEDIT 104 >1zb7_A Neurotoxin; hexxh metalloprotease; HET: FLC; 2.35A {Clostridium botulinum} (A:79-133,A:197-412) Length = 271 Score = 26.4 bits (58), Expect = 6.8 Identities = 9/25 (36%), Positives = 18/25 (72%), Gaps = 1/25 (4%) Query: 74 KDSITGQYVVDKEKFEKVVRSVIRS 98 +D G+Y VDK+KF+K+ ++++ Sbjct: 190 EDP-NGKYSVDKDKFDKLYKALMFG 213 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 0.319 0.136 0.403 Gapped Lambda K H 0.267 0.0643 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 3,195,996 Number of extensions: 143513 Number of successful extensions: 379 Number of sequences better than 10.0: 1 Number of HSP's gapped: 362 Number of HSP's successfully gapped: 28 Length of query: 413 Length of database: 4,956,049 Length adjustment: 91 Effective length of query: 322 Effective length of database: 1,879,794 Effective search space: 605293668 Effective search space used: 605293668 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 (21.7 bits) S2: 56 (25.5 bits)