RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780529|ref|YP_003064942.1| flagellar motor protein MotB [Candidatus Liberibacter asiaticus str. psy62] (343 letters) >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 = 83.3 bits (205), Expect = 5e-17 Identities = 43/182 (23%), Positives = 77/182 (42%), Gaps = 5/182 (2%) Query: 165 KSINKEENYFLPPLSKEKILAMKRKKRLQDLAKKISSTLSGLVA-DNIVKGVLFETTRTG 223 +++ + +++ + RL L + + + + + + G Sbjct: 2 DDYTQQQGEVEKQPNIDELKKRXEQSRLNKLRGDLDQLIESDPKLRALRPHLKIDLVQEG 61 Query: 224 ILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIARD 283 + I IID +N P F S+ P +L+ I VL IS+ GHTD P+ N + Sbjct: 62 LRIQIIDSQNRPXFKTGSAEVEPYXRDILRAIAPVLNGIPNRISLAGHTDDFPYANGEKG 121 Query: 284 --NWRLSLDRAYSAYQVLM-KSGVSEDRISKISGFAHHRLKIASDPMNSANRRIDILVED 340 NW LS DRA ++ + L+ + + + G A P ++ NRRI +LV + Sbjct: 122 YSNWELSADRANASRRELVAGGLDNGKVLR-VVGXAATXRLSDRGPDDAINRRISLLVLN 180 Query: 341 RQ 342 +Q Sbjct: 181 KQ 182 >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 = 81.8 bits (201), Expect = 1e-16 Identities = 45/165 (27%), Positives = 77/165 (46%), Gaps = 3/165 (1%) Query: 181 EKILAMKRKKRLQDLAKKISSTLSGLVA-DNIVKGVLFETTRTGILISIIDQRNTPMFDK 239 +++ + RL L + + + + + + G+ I IID +N PMF Sbjct: 7 DELKKRMEQSRLNKLRGDLDQLIESDPKLRALRPHLKIDLVQEGLRIQIIDSQNRPMFKT 66 Query: 240 SSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIARD--NWRLSLDRAYSAYQ 297 S+ P +L+ I VL IS+ GHTD P+ N + NW LS DRA ++ + Sbjct: 67 GSAEVEPYMRDILRAIAPVLNGIPNRISLAGHTDDFPYANGEKGYSNWELSADRANASRR 126 Query: 298 VLMKSGVSEDRISKISGFAHHRLKIASDPMNSANRRIDILVEDRQ 342 L+ G+ ++ ++ G A P ++ NRRI +LV ++Q Sbjct: 127 ELVAGGLDNGKVLRVVGMAATMRLSDRGPDDAINRRISLLVLNKQ 171 >3khn_A MOTB protein, putative; structural genomics, OMPA-like domain, PSI-2, protein structure initiative; 2.03A {Desulfovibrio vulgaris str} (A:) Length = 174 Score = 64.8 bits (157), Expect = 1e-11 Identities = 27/160 (16%), Positives = 60/160 (37%), Gaps = 10/160 (6%) Query: 187 KRKKRLQDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLP 246 + + + + + + + + I + + + +F + P Sbjct: 11 ELIEAQRQTYNEXRTYFTVNGVEG---VIGAVFDEGVITLRV---PSEVLFAPGAVELAP 64 Query: 247 ETIVVLQKIGEVL-AHSTEVISIRGHTDASPFRNIAR--DNWRLSLDRAYSAYQVLMKSG 303 VL + ++ + I+I+G TD AR DNW +S R+ + + + +G Sbjct: 65 GADRVLATLKDLFIRRREQNINIKGFTDDVQPSANARFKDNWEVSALRSVNVLRYFLGAG 124 Query: 304 VSEDRISKIS-GFAHHRLKIASDPMNSANRRIDILVEDRQ 342 + R++ G SD + NRR++ ++E R Sbjct: 125 IEPARLTATGLGELDPLFPNTSDENRARNRRVEFVLERRV 164 >2hqs_H Peptidoglycan-associated lipoprotein; TOLB, PAL, TOL, transport protein/lipoprotein complex; 1.50A {Escherichia coli} (H:) Length = 118 Score = 59.7 bits (144), Expect = 5e-10 Identities = 26/117 (22%), Positives = 44/117 (37%), Gaps = 5/117 (4%) Query: 228 IIDQRNTPMFDKSSSIPLPETIVVLQKIGEVL-AHSTEVISIRGHTDASPFRNIARDNWR 286 ++ Q N FD + +L L ++ + +++ GH D N Sbjct: 1 MLQQNNIVYFDLDKYDIRSDFAQMLDAHANFLRSNPSYKVTVEGHADERG---TPEYNIS 57 Query: 287 LSLDRAYSAYQVLMKSGVSEDRISKIS-GFAHHRLKIASDPMNSANRRIDILVEDRQ 342 L RA + L GVS D+IS +S G + + S NRR ++ + Sbjct: 58 LGERRANAVKMYLQGKGVSADQISIVSYGKEKPAVLGHDEAAYSKNRRAVLVYLEHH 114 >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 = 58.9 bits (142), Expect = 9e-10 Identities = 24/116 (20%), Positives = 56/116 (48%), Gaps = 5/116 (4%) Query: 233 NTPMFDKSSSIPL-PETIVVLQKIGEVLAH--STEVISIRGHTDASPFRN-IARDNWRLS 288 + F+ ++S + + ++ +++I +++ I++RG TD +P + ++ L+ Sbjct: 3 DPFTFENATSDAINQDMMLYIERIAKIIQKLPKRVHINVRGFTDDTPLVKTRFKSHYELA 62 Query: 289 LDRAYSAYQVLMKSGVSEDRISKIS-GFAHHRLKIASDPMNSANRRIDILVEDRQG 343 +RAY +VL++ GV+ +++S S G + S N R++I Sbjct: 63 ANRAYRVMKVLIQYGVNPNQLSFSSYGSTNPIAPNDSLENRMKNNRVEIFFSTDAN 118 >2k1s_A Inner membrane lipoprotein YIAD; abbababab, OMPA, alpha beta, palmitate, transmembrane, structural genomics, PSI-2; NMR {Escherichia coli K12} (A:) Length = 149 Score = 57.8 bits (139), Expect = 2e-09 Identities = 35/154 (22%), Positives = 60/154 (38%), Gaps = 15/154 (9%) Query: 191 RLQDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIV 250 + K+ + G GV + I++++ N FD SS+ P Sbjct: 2 YMDVQEAKLRDKMRG-------TGVSVTRSGDNIILNM---PNNVTFDSSSATLKPAGAN 51 Query: 251 VLQKIGEVLA-HSTEVISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRI 309 L + VL + +++ G+TD++ N RLS RA S L+ GV RI Sbjct: 52 TLTGVAMVLKEYPKTAVNVIGYTDSTGGH---DLNMRLSQQRADSVASALITQGVDASRI 108 Query: 310 SKIS-GFAHHRLKIASDPMNSANRRIDILVEDRQ 342 G A+ ++ + NRR++I + Sbjct: 109 RTQGLGPANPIASNSTAEGKAQNRRVEITLSPLL 142 >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 = 56.7 bits (136), Expect = 4e-09 Identities = 27/156 (17%), Positives = 52/156 (33%), Gaps = 8/156 (5%) Query: 190 KRLQDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETI 249 + +A + ++ D + + + + I F SS Sbjct: 14 GTVGLVASIYRDSKRKIIRDLQKQDIQYVEYGDTRTLII---PTDKYFXFSSPRLNEICY 70 Query: 250 VVLQKIGEVLA-HSTEVISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDR 308 L + +L + I + G TD R +LS +A + L +G++ R Sbjct: 71 PGLNNVIRLLNFYPQSTIYVAGFTDNVGSR---SHKRKLSQAQAETXXTFLWANGIAAKR 127 Query: 309 ISKIS-GFAHHRLKIASDPMNSANRRIDILVEDRQG 343 + G + A ++ NRRI+I +G Sbjct: 128 LKAEGYGDKNAISDNAIIHGSAQNRRIEIQWFTSEG 163 >1r1m_A Outer membrane protein class 4; 1.90A {Neisseria meningitidis} (A:) Length = 164 Score = 56.3 bits (135), Expect = 6e-09 Identities = 23/117 (19%), Positives = 42/117 (35%), Gaps = 5/117 (4%) Query: 228 IIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEV-ISIRGHTDASPFRNIARDNWR 286 I +F E L+ + + L+ + + + GHTD + N Sbjct: 10 TISLSAKTLFGFDKDSLRAEAQDNLKVLAQRLSRTNIQSVRVEGHTDFMGSD---KYNQA 66 Query: 287 LSLDRAYSAYQVLMKSGVSEDRISKIS-GFAHHRLKIASDPMNSANRRIDILVEDRQ 342 LS RAY L+ +GV RIS + G + ++ + + + R+ Sbjct: 67 LSERRAYVVANNLVSNGVPVSRISAVGLGESQAQMTQVCEAEVAKLGAKVSKAKKRE 123 >2aiz_P Outer membrane protein P6; alpha-beta sandwich; HET: UDP AMU DGL 6CL DAL; NMR {Haemophilus influenzae} (P:) Length = 134 Score = 56.0 bits (134), Expect = 6e-09 Identities = 24/121 (19%), Positives = 40/121 (33%), Gaps = 5/121 (4%) Query: 218 ETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVL-AHSTEVISIRGHTDASP 276 +T + + + NT F E + +L L A + + G+TD Sbjct: 15 QTFGGYSVADLQQRYNTVYFGFDKYDITGEYVQILDAHAAYLNATPAAKVLVEGNTDERG 74 Query: 277 FRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKIS-GFAHHRLKIASDPMNSANRRID 335 N L RA + L GV ++ +S G + + S NRR Sbjct: 75 TP---EYNIALGQRRADAVKGYLAGKGVDAGKLGTVSYGEEKPAVLGHDEAAYSKNRRAV 131 Query: 336 I 336 + Sbjct: 132 L 132 >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 = 53.5 bits (128), Expect = 4e-08 Identities = 21/106 (19%), Positives = 39/106 (36%), Gaps = 6/106 (5%) Query: 236 MFDKSSSIPLPETIVVLQKIGEVLAH--STEVISIRGHTDASPFRNIARDNWRLSLDRAY 293 +++ + L +I + + H +++ + +TD+ + + LS RA Sbjct: 11 HYERQGDQLTKASKKRLSQIADYIRHNQDIDLVLVATYTDS---TDGKSASQSLSERRAE 67 Query: 294 SAYQVLMKSGVSEDRISKIS-GFAHHRLKIASDPMNSANRRIDILV 338 S G+ EDRI G S NRR+ I + Sbjct: 68 SLRDYFQSLGLPEDRIQVQGYGKRRPIADNGSPIGKDKNRRVVISL 113 >3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation termination, ATP-binding, cytoplasm, hydrolase, membrane; 2.80A {Schizosaccharomyces pombe} (A:1-326) Length = 326 Score = 30.5 bits (68), Expect = 0.37 Identities = 14/84 (16%), Positives = 25/84 (29%), Gaps = 13/84 (15%) Query: 191 RLQDLAKKISSTLSGLV------ADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIP 244 + DL K+ + ADN++ I + +F S Sbjct: 245 TVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLF----SAT 300 Query: 245 LPETIVVLQKIGEVLAHSTEVISI 268 E + +K E A + I + Sbjct: 301 FSERV---EKYAERFAPNANEIRL 321 >1skn_P DNA-binding domain of SKN-1; complex (transcription factor/DNA), transcription/DNA complex; HET: DNA LDA; 2.50A {Caenorhabditis elegans} (P:) Length = 92 Score = 26.5 bits (58), Expect = 4.8 Identities = 9/63 (14%), Positives = 23/63 (36%), Gaps = 3/63 (4%) Query: 133 YLSNSQQSEHCKNSLTRDSEKGKDLCKSTDLEKSINKEENYFLP---PLSKEKILAMKRK 189 + +S Q + + S +L S ++ E + LS+ + +++ Sbjct: 5 HHHHSGQRKRGRQSKDEQLASDNELPVSAFQISEMSLSELQQVLKNESLSEYQRQLIRKI 64 Query: 190 KRL 192 +R Sbjct: 65 RRR 67 >2f7v_A Aectylcitrulline deacetylase; alpha/beta, hydrolase; 1.75A {Xanthomonas campestris} PDB: 2f8h_A (A:1-164,A:287-369) Length = 247 Score = 26.6 bits (58), Expect = 5.4 Identities = 5/35 (14%), Positives = 10/35 (28%) Query: 246 PETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNI 280 E + + ++ T+AS F Sbjct: 171 AEERRLAARDVADALDLPIGNAVDFWTEASLFSAG 205 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 0.315 0.131 0.366 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: 2,404,793 Number of extensions: 103188 Number of successful extensions: 348 Number of sequences better than 10.0: 1 Number of HSP's gapped: 337 Number of HSP's successfully gapped: 20 Length of query: 343 Length of database: 4,956,049 Length adjustment: 89 Effective length of query: 254 Effective length of database: 1,947,404 Effective search space: 494640616 Effective search space used: 494640616 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: 55 (25.5 bits)