RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780547|ref|YP_003064960.1| OmpA/MotB [Candidatus Liberibacter asiaticus str. psy62] (160 letters) >2aiz_P Outer membrane protein P6; alpha-beta sandwich; HET: UDP AMU DGL 6CL DAL; NMR {Haemophilus influenzae} (P:) Length = 134 Score = 82.5 bits (203), Expect = 2e-17 Identities = 42/104 (40%), Positives = 60/104 (57%), Gaps = 1/104 (0%) Query: 47 SVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSIALGLRR 105 ++V+F Y I +Q+L ++L L+EG+ DE G+ +IALG RR Sbjct: 27 QRYNTVYFGFDKYDITGEYVQILDAHAAYLNATPAAKVLVEGNTDERGTPEYNIALGQRR 86 Query: 106 AYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRA 149 A AV Y +G+ A ++ SYG+E P+V GHDE AY+KNRRA Sbjct: 87 ADAVKGYLAGKGVDAGKLGTVSYGEEKPAVLGHDEAAYSKNRRA 130 >1r1m_A Outer membrane protein class 4; 1.90A {Neisseria meningitidis} (A:) Length = 164 Score = 82.5 bits (203), Expect = 3e-17 Identities = 30/109 (27%), Positives = 42/109 (38%), Gaps = 1/109 (0%) Query: 47 SVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSIALGLRR 105 S+ F S+R L L L + +EGH D +GS + AL RR Sbjct: 12 SLSAKTLFGFDKDSLRAEAQDNLKVLAQRLSRTNIQSVRVEGHTDFMGSDKYNQALSERR 71 Query: 106 AYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLK 154 AY V N V+ G+ SR+ G+ + E AK + K Sbjct: 72 AYVVANNLVSNGVPVSRISAVGLGESQAQMTQVCEAEVAKLGAKVSKAK 120 >2k1s_A Inner membrane lipoprotein YIAD; abbababab, OMPA, alpha beta, palmitate, transmembrane, structural genomics, PSI-2; NMR {Escherichia coli K12} (A:) Length = 149 Score = 80.9 bits (199), Expect = 8e-17 Identities = 27/110 (24%), Positives = 56/110 (50%), Gaps = 1/110 (0%) Query: 47 SVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSIALGLRR 105 ++ ++V FD+SS +++PA L+ + L+++ + G+ D G + ++ L +R Sbjct: 31 NMPNNVTFDSSSATLKPAGANTLTGVAMVLKEYPKTAVNVIGYTDSTGGHDLNMRLSQQR 90 Query: 106 AYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLKG 155 A +V + + +G+ ASR++ G P + A+NRR + L Sbjct: 91 ADSVASALITQGVDASRIRTQGLGPANPIASNSTAEGKAQNRRVEITLSP 140 >3cyp_B Chemotaxis protein MOTB; bacterial flagellar motor, peptidoglycan binding, bacterial flagellum, flagellar rotation, inner membrane, membrane; 1.60A {Helicobacter pylori} PDB: 3cyq_B* (B:) Length = 138 Score = 80.1 bits (197), Expect = 1e-16 Identities = 22/113 (19%), Positives = 41/113 (36%), Gaps = 7/113 (6%) Query: 50 DSVFFDT-SSYSIRPADIQVLSNLGSWLEKH--DCDFLIEGHADE----LGSRNSSIALG 102 D F+ +S +I + + + ++K + G D+ S L Sbjct: 3 DPFTFENATSDAINQDMMLYIERIAKIIQKLPKRVHINVRGFTDDTPLVKTRFKSHYELA 62 Query: 103 LRRAYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLKG 155 RAY V + G++ +++ +SYG P + KN R +F Sbjct: 63 ANRAYRVMKVLIQYGVNPNQLSFSSYGSTNPIAPNDSLENRMKNNRVEIFFST 115 >3khn_A MOTB protein, putative; structural genomics, OMPA-like domain, PSI-2, protein structure initiative; 2.03A {Desulfovibrio vulgaris str} (A:) Length = 174 Score = 78.6 bits (193), Expect = 3e-16 Identities = 26/131 (19%), Positives = 51/131 (38%), Gaps = 6/131 (4%) Query: 31 PDTVLNESSLQEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHA 89 + V+ + + V V F + + P +VL+ L + + + I+G Sbjct: 32 VEGVIGAVFDEGVITLRVPSEVLFAPGAVELAPGADRVLATLKDLFIRRREQNINIKGFT 91 Query: 90 DELG-----SRNSSIALGLRRAYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYA 144 D++ + + R+ V YF+ GI +R+ T G+ P ++ A Sbjct: 92 DDVQPSANARFKDNWEVSALRSVNVLRYFLGAGIEPARLTATGLGELDPLFPNTSDENRA 151 Query: 145 KNRRAIVFLKG 155 +NRR L+ Sbjct: 152 RNRRVEFVLER 162 >2zf8_A MOTY, component of sodium-driven polar flagellar motor; beta barrel, 2-layer sandwich, flagellum, structural protein; 2.85A {Vibrio alginolyticus} (A:155-278) Length = 124 Score = 78.6 bits (193), Expect = 4e-16 Identities = 24/106 (22%), Positives = 48/106 (45%), Gaps = 2/106 (1%) Query: 50 DSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCD--FLIEGHADELGSRNSSIALGLRRAY 107 + ++ + A + LS + ++ + L+ + D +++S +L RRA Sbjct: 8 TILHYERQGDQLTKASKKRLSQIADYIRHNQDIDLVLVATYTDSTDGKSASQSLSERRAE 67 Query: 108 AVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFL 153 ++ +YF + G+ R++V YGK P KNRR ++ L Sbjct: 68 SLRDYFQSLGLPEDRIQVQGYGKRRPIADNGSPIGKDKNRRVVISL 113 >3ldt_A Outer membrane protein, OMPA family protein; OMPA-like domain, PSI-II, NYSGXRC, structural genomics, protein structure initiative; 2.30A {Legionella pneumophila} (A:) Length = 169 Score = 78.3 bits (192), Expect = 5e-16 Identities = 25/110 (22%), Positives = 41/110 (37%), Gaps = 1/110 (0%) Query: 47 SVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSIALGLRR 105 + +F SS + L+N+ L + + G D +GSR+ L + Sbjct: 51 IIPTDKYFXFSSPRLNEICYPGLNNVIRLLNFYPQSTIYVAGFTDNVGSRSHKRKLSQAQ 110 Query: 106 AYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLKG 155 A + A GI+A R+K YG + A+NRR + Sbjct: 111 AETXXTFLWANGIAAKRLKAEGYGDKNAISDNAIIHGSAQNRRIEIQWFT 160 >2hqs_H Peptidoglycan-associated lipoprotein; TOLB, PAL, TOL, transport protein/lipoprotein complex; 1.50A {Escherichia coli} (H:) Length = 118 Score = 78.2 bits (192), Expect = 6e-16 Identities = 46/108 (42%), Positives = 65/108 (60%), Gaps = 1/108 (0%) Query: 47 SVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSIALGLRR 105 + V+FD Y IR Q+L ++L + +EGHADE G+ +I+LG RR Sbjct: 3 QQNNIVYFDLDKYDIRSDFAQMLDAHANFLRSNPSYKVTVEGHADERGTPEYNISLGERR 62 Query: 106 AYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFL 153 A AV Y +G+SA ++ + SYGKE P+V GHDE AY+KNRRA++ Sbjct: 63 ANAVKMYLQGKGVSADQISIVSYGKEKPAVLGHDEAAYSKNRRAVLVY 110 >2zov_A Chemotaxis protein MOTB; 2-layer sandwich, bacterial flagellum, cell projection, flagellar rotation, inner membrane, membrane; 2.00A {Salmonella typhimurium} (A:) Length = 210 Score = 77.2 bits (189), Expect = 9e-16 Identities = 21/110 (19%), Positives = 33/110 (30%), Gaps = 8/110 (7%) Query: 50 DSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADE-----LGSRNSSIALGLR 104 + F T S + P +L + L + GH D+ S+ L Sbjct: 71 NRPXFKTGSAEVEPYXRDILRAIAPVLNGIPNRISLAGHTDDFPYANGEKGYSNWELSAD 130 Query: 105 RAYAVFNYFVAR-GISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFL 153 RA A VA + ++V A NRR + + Sbjct: 131 RANASRRELVAGGLDNGKVLRVVGXAATXR--LSDRGPDDAINRRISLLV 178 >2zvy_A Chemotaxis protein MOTB; 2-layer sandwich, bacterial flagellum, cell inner membrane, cell membrane, flagellar rotation, membrane; 1.75A {Salmonella typhimurium} PDB: 2zvz_A (A:) Length = 183 Score = 76.4 bits (187), Expect = 2e-15 Identities = 24/112 (21%), Positives = 36/112 (32%), Gaps = 9/112 (8%) Query: 50 DSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADE-----LGSRNSSIALGLR 104 + F T S + P +L + L + GH D+ S+ L Sbjct: 60 NRPMFKTGSAEVEPYMRDILRAIAPVLNGIPNRISLAGHTDDFPYANGEKGYSNWELSAD 119 Query: 105 RAYAVFNYFVARG-ISASRMKVTSYGKEMPSVYGHDEDAYAKNRRA-IVFLK 154 RA A VA G + ++V M A NRR ++ L Sbjct: 120 RANASRRELVAGGLDNGKVLRVVGMAATMRLS--DRGPDDAINRRISLLVLN 169 >3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease mutation, guanine-nucleotide releasing factor, signaling protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A (A:634-762) Length = 129 Score = 26.5 bits (58), Expect = 1.7 Identities = 9/53 (16%), Positives = 17/53 (32%) Query: 31 PDTVLNESSLQEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDF 83 + + + I+P ++VL+ W+E H DF Sbjct: 19 EPEPTEADRIAIENGDQPLSAELKRFRKEYIQPVQLRVLNVCRHWVEHHFYDF 71 >2ii0_A SOS-1, SON of sevenless homolog 1; signaling protein; 2.02A {Homo sapiens} (A:75-202) Length = 128 Score = 25.7 bits (56), Expect = 2.8 Identities = 10/64 (15%), Positives = 22/64 (34%), Gaps = 1/64 (1%) Query: 21 IDNLDTKISSPD-TVLNESSLQEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH 79 + + + P+ + + + I+P ++VL+ W+E H Sbjct: 8 LSLIIERFEIPEPEPTEADRIAIENGDQPLSAELKRFRKEYIQPVQLRVLNVCRHWVEHH 67 Query: 80 DCDF 83 DF Sbjct: 68 FYDF 71 >1gxs_A HNL, hydroxynitrIle lyase; inhibitor complex, cyanogenesis mechanism; HET: NAG FUL FUC DKA; 2.3A {Sorghum bicolor} (A:1-190) Length = 190 Score = 24.0 bits (51), Expect = 9.2 Identities = 7/44 (15%), Positives = 16/44 (36%) Query: 41 QEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFL 84 SS+G + ++ + +L N +W + + F Sbjct: 62 GGPGCSSIGLGAMQELGAFRVHTNGESLLLNEYAWNKAANILFA 105 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 0.318 0.132 0.372 Gapped Lambda K H 0.267 0.0486 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 1,115,260 Number of extensions: 44798 Number of successful extensions: 94 Number of sequences better than 10.0: 1 Number of HSP's gapped: 87 Number of HSP's successfully gapped: 15 Length of query: 160 Length of database: 4,956,049 Length adjustment: 82 Effective length of query: 78 Effective length of database: 2,184,039 Effective search space: 170355042 Effective search space used: 170355042 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 (21.8 bits) S2: 51 (24.0 bits)