RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780529|ref|YP_003064942.1| flagellar motor protein MotB [Candidatus Liberibacter asiaticus str. psy62] (343 letters) >gnl|CDD|168338 PRK05996, motB, flagellar motor protein MotB; Validated. Length = 423 Score = 163 bits (414), Expect = 7e-41 Identities = 70/194 (36%), Positives = 111/194 (57%), Gaps = 7/194 (3%) Query: 149 RDSEKGKDLCKSTDLEKSINKEENYFLPPLSKEKILAMKRKKRLQDLAKKISSTLSGLVA 208 + E D K+ E + N + +K + + ++K + L I+ + G VA Sbjct: 237 TEEELIADAKKAATGEPAANAAKA------AKPEPMPDDQQKEAEQLQAAIAQAIGG-VA 289 Query: 209 DNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISI 268 + +GV G+LIS+ DQ + MF S++P E ++ ++KIG++LA + I Sbjct: 290 GKLAEGVTVTPVEGGLLISLTDQVDYGMFAIGSAVPRAELVLAMEKIGQLLAERPGAVII 349 Query: 269 RGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPMN 328 RGHTDA PF++ DNWRLS RA SAY +L++ G+ E RI ++ GFA R K+ +DP Sbjct: 350 RGHTDARPFKSATYDNWRLSTARAQSAYYMLVRGGLDEKRIEQVEGFADRRPKLPNDPNA 409 Query: 329 SANRRIDILVEDRQ 342 +ANRRI+IL++ +Q Sbjct: 410 AANRRIEILIQSKQ 423 Score = 93.2 bits (232), Expect = 9e-20 Identities = 39/102 (38%), Positives = 53/102 (51%), Gaps = 10/102 (9%) Query: 2 NSHGDKNQENDQFIIIKKKVAIDDTPNNLGSWKIVYADFMTVLMAFFLVMWIINATDDDT 61 H KN+ II+++ D ++ G WKI YADFMT +MAFFLVMW+INA +++T Sbjct: 5 IHHEGKNE----IIIVRRGGDDDHEGHHGGVWKIAYADFMTAMMAFFLVMWLINAANEET 60 Query: 62 KKAIEQYFNPFGKNLM---TASKGIFD-EQNPPERSSQNKID 99 K A+ YFNP L + KG+ D K Sbjct: 61 KAAVASYFNPI--KLTDRKPSEKGLKDPVDGAEGEQKPGKSK 100 >gnl|CDD|181621 PRK09041, motB, flagellar motor protein MotB; Validated. Length = 317 Score = 148 bits (375), Expect = 3e-36 Identities = 98/338 (28%), Positives = 150/338 (44%), Gaps = 74/338 (21%) Query: 10 ENDQFIIIK--KKVAIDDTPNNLGSWKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQ 67 EN I++K KK ++ GSWKI YADFMT +MAFFLVMW+++++ + I + Sbjct: 4 ENHPPIVVKRVKKKGH---GHHGGSWKIAYADFMTAMMAFFLVMWLLSSSTPEQLIGIAE 60 Query: 68 YF-NPFGKNLMTASKGIFDEQNPPERSSQNKIDLSIDEHITKNSVDLKIGSTNQKKQYQR 126 YF P L A G S + I D+ IT+ ++ + Sbjct: 61 YFRTP----LKVALTG-----GDRSSDSTSPIPGGGDD-ITQQDGEVNKQPNIAELAQGE 110 Query: 127 LENNIFYLSNSQQSEHCKNSLTRDSEKGKDLCKSTDLEKSINKEENYFLPPLSKEKILAM 186 E R+ E+ + L + +L+++I E N P L Sbjct: 111 KER-------------------REQERLEKLKQ--ELDQAI--ESN---PKLR------- 137 Query: 187 KRKKRLQDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLP 246 + K +L I T GL R I I+D +N PMF S+ P Sbjct: 138 QFKPQL-----LIDLTQEGL--------------R----IQIVDSQNRPMFATGSAEVEP 174 Query: 247 ETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIARD--NWRLSLDRAYSAYQVLMKSGV 304 +L++I VL IS+ GHTDA+P+ N + NW LS DRA ++ + L+ G+ Sbjct: 175 YMRDILREIAPVLNDVPNRISLSGHTDATPYANGEKGYSNWELSADRANASRRELVAGGM 234 Query: 305 SEDRISKISGFAHHRLKIASDPMNSANRRIDILVEDRQ 342 E ++ ++ G A L DP+N NRRI I+V +++ Sbjct: 235 DEGKVLRVVGLASTMLLDKKDPLNPVNRRISIVVLNKK 272 >gnl|CDD|180691 PRK06778, PRK06778, hypothetical protein; Validated. Length = 289 Score = 102 bits (255), Expect = 1e-22 Identities = 79/323 (24%), Positives = 132/323 (40%), Gaps = 70/323 (21%) Query: 16 IIKKKVAIDDTPNNLGSWKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQYFNPFGKN 75 IIK+ + G+WK+ +ADF +MA F+V+WI+N+ +++I + Sbjct: 5 IIKRANRKKHHVRHSGAWKVAFADFTLAMMALFMVLWIVNSVSKSERESIIAALH----- 59 Query: 76 LMTASKGIFDEQNPPERSSQNKIDLSIDEHITKNSVDLKIGSTNQKKQYQRLENNIFYLS 135 + IF N S NKI S Sbjct: 60 ----GQSIF---NGGGLSPLNKISPSHP-------------------------------P 81 Query: 136 NSQQSEHCKNSLTRDSEKGKDLCKSTDLEKSINKEENYFLPPLSKEKILAMKRKKRLQDL 195 + + +K +D+ + T L K K L +L Sbjct: 82 KPATVAVPEET----EKKARDVNEKTALLKK--------------------KSATELGEL 117 Query: 196 AKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKI 255 A I++ ++ + E G+ + I D +N MF++ S+ +P +L ++ Sbjct: 118 ATSINTIAR---DAHMEANLEMEIVPQGLRVLIKDDQNRNMFERGSAQIMPFFKTLLVEL 174 Query: 256 GEVLAHSTEVISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGF 315 V I I GHTDA ++N +NW LS DRA SA +VL ++G+ ED++ ++S Sbjct: 175 APVFDSLDNKIIITGHTDAMAYKNNIYNNWNLSGDRALSARRVLEEAGMPEDKVMQVSAM 234 Query: 316 AHHRLKIASDPMNSANRRIDILV 338 A L A +P ++ NRRI+I+V Sbjct: 235 ADQMLLDAKNPQSAGNRRIEIMV 257 >gnl|CDD|183756 PRK12799, motB, flagellar motor protein MotB; Reviewed. Length = 421 Score = 70.1 bits (171), Expect = 9e-13 Identities = 48/133 (36%), Positives = 70/133 (52%), Gaps = 8/133 (6%) Query: 215 VLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDA 274 +L G+ I IID +N PMF S+ P +L+ I +L +S+ GHTD Sbjct: 138 LLINMMDEGLRIQIIDSQNRPMFKMGSAQVEPYMRDILRAIAPILNDIPNKLSLSGHTDD 197 Query: 275 SPFRNIAR--DNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAH-HRLK--IASDPMNS 329 P+ R NW LS DRA ++ + L+ G+ E +I ++ G A RLK + DP+ Sbjct: 198 LPYARGERGYSNWELSADRANASRRELLAGGLDEGKILRVVGMASTMRLKEQASDDPV-- 255 Query: 330 ANRRIDILVEDRQ 342 NRRI ILV ++Q Sbjct: 256 -NRRISILVLNKQ 267 Score = 63.2 bits (153), Expect = 1e-10 Identities = 29/81 (35%), Positives = 42/81 (51%) Query: 9 QENDQFIIIKKKVAIDDTPNNLGSWKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQY 68 +N I++KK+ + GSWKI YADFMT +MAFFLVMW++ + I +Y Sbjct: 3 HQNHPVILVKKRKTKHGAAHYGGSWKIAYADFMTAMMAFFLVMWLLAVSSPQELTQIAEY 62 Query: 69 FNPFGKNLMTASKGIFDEQNP 89 F K +T+ +P Sbjct: 63 FRTPLKVALTSGDKSSSSTSP 83 >gnl|CDD|181590 PRK08944, motB, flagellar motor protein MotB; Reviewed. Length = 302 Score = 66.6 bits (163), Expect = 8e-12 Identities = 50/155 (32%), Positives = 79/155 (50%), Gaps = 13/155 (8%) Query: 193 QDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVL 252 +DL KK++ L + D ++ E+ I+I I R F S+ P+ V+ Sbjct: 145 EDLVKKLAQQLEKEIEDGAIE---IESLGQQIIIRI---REKGSFPSGSAFLQPKFKPVV 198 Query: 253 QKIGEVLAHSTEVISIRGHTDASPFRN-IARDNWRLSLDRAYSAYQVLMKS-GVSEDRIS 310 +KIGE+L +I++ GHTD P + + R NW LS RA + L+K G R+ Sbjct: 199 RKIGELLKDVPGIITVSGHTDNVPISSELYRSNWDLSSARAVAVAHELLKVKGFDPQRL- 257 Query: 311 KISGFAHHRLKIASD-PMNSA-NRRIDILVEDRQG 343 K+ G A + + +D N A NRR++I++E QG Sbjct: 258 KVVGMADTQPLVPNDTAENRARNRRVEIIIE--QG 290 Score = 36.9 bits (86), Expect = 0.008 Identities = 9/28 (32%), Positives = 16/28 (57%) Query: 24 DDTPNNLGSWKIVYADFMTVLMAFFLVM 51 P +W +AD M++LM FF+++ Sbjct: 8 KCPPPGAPAWLATFADLMSLLMCFFVLL 35 >gnl|CDD|181618 PRK09038, PRK09038, flagellar motor protein MotD; Reviewed. Length = 281 Score = 63.1 bits (154), Expect = 9e-11 Identities = 37/161 (22%), Positives = 70/161 (43%), Gaps = 20/161 (12%) Query: 187 KRKKRLQDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLP 246 + + +L+ +A + L L+ V I I I ++ +F ++ Sbjct: 93 RAQDQLKTIADDLRKALGPLIESGQVT---VRRNELWIEIEI---NSSLLFGSGDAMLSD 146 Query: 247 ETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIAR--DNWRLSLDRAYSAYQVLMKSGV 304 + +L+K+ EVL + I + G TD P A+ NW LS RA S ++L GV Sbjct: 147 QAFAILEKVAEVLKPAPNPIHVEGFTDNVPIAT-AQFPSNWELSAARAASVVRLLADDGV 205 Query: 305 SEDRISKISGFAHHRLKIASDPMN------SANRRIDILVE 339 + R++ + G+ + +A N + NRR+ +++ Sbjct: 206 APSRLAAV-GYGEFQ-PVAD---NDTAEGRARNRRVVLVIL 241 Score = 41.5 bits (98), Expect = 3e-04 Identities = 13/22 (59%), Positives = 18/22 (81%) Query: 33 WKIVYADFMTVLMAFFLVMWII 54 W + YADF+T+L AFF+VM+ I Sbjct: 17 WLVSYADFITLLFAFFVVMYAI 38 >gnl|CDD|132393 TIGR03350, type_VI_ompA, type VI secretion system OmpA/MotB family protein. The flagellar motor protein MotB and the Gram-negative bacterial outer membrane protein OmpA share a region of sequence homology. This model describes a domain found fused to type VI secretion system homologs of the type IV system protein DotU (see model TIGR03349), with OmpA/MotB homology. Length = 137 Score = 60.0 bits (146), Expect = 8e-10 Identities = 40/147 (27%), Positives = 62/147 (42%), Gaps = 20/147 (13%) Query: 202 TLSGLVADNIVKGVL-FETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLA 260 L L+A I G+L + ++ + R +F S+ + +L +I + LA Sbjct: 1 RLRALLAPEIAAGLLTVDEDGDRSVVRL---RGDELFASGSAEVRADFEPLLDRIAKALA 57 Query: 261 HSTEVISIRGHTDASPFRNIA-RDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHR 319 I++ GHTD P R NW LS RA + VL + GV R+ G Sbjct: 58 AVPGRITVVGHTDNVPIRTSRFPSNWHLSEARAKAVADVLAQGGVPAGRVR-AEG----- 111 Query: 320 LKIASDPMNS--------ANRRIDILV 338 + S+P+ S NRR++I V Sbjct: 112 -RGDSEPIASNATAAGRAQNRRVEIDV 137 >gnl|CDD|102525 PRK06742, PRK06742, flagellar motor protein MotS; Reviewed. Length = 225 Score = 51.6 bits (123), Expect = 3e-07 Identities = 53/190 (27%), Positives = 85/190 (44%), Gaps = 11/190 (5%) Query: 155 KDLCKSTDLEKSINKEENYFLPPLSKEK-ILAMKRKKRLQDLAKKISSTLSGLVADNIVK 213 K L K +D E+ K +P +S EK M KKR+ +L KK L V +N + Sbjct: 43 KMLEKFSDTEQVDAKVMENTIPDISHEKNDEKMISKKRMDELYKK----LKAYVDNNGIS 98 Query: 214 GVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTD 273 V TG+ + I+D +FD + PE ++ ++ I + GHTD Sbjct: 99 QVNVYREDTGVSVVIVDNL---IFDTGDANVKPEAKEIISQLVGFFQSVPNPIVVEGHTD 155 Query: 274 ASPFRNIA-RDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASD-PMN-SA 330 + P N NW LS RA + L++ +D+ G+A + + +D P N Sbjct: 156 SRPIHNDKFPSNWELSSARAANMIHHLIEVYNVDDKRLAAVGYADTKPVVPNDSPQNWEK 215 Query: 331 NRRIDILVED 340 NRR+ I +++ Sbjct: 216 NRRVVIYIKE 225 >gnl|CDD|180801 PRK07033, PRK07033, hypothetical protein; Provisional. Length = 427 Score = 50.4 bits (121), Expect = 7e-07 Identities = 32/122 (26%), Positives = 54/122 (44%), Gaps = 18/122 (14%) Query: 227 SIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIAR--DN 284 S++ R +F +S+ VL ++ + L + + G++D P R AR N Sbjct: 308 SVVTLRGDGLFASASTSVRDRYQPVLARVADALNQVKGNVLVTGYSDNVPIRT-ARFPSN 366 Query: 285 WRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPM---NSA-----NRRIDI 336 W LS RA + +L +R++ A R SDP+ +SA NRR++I Sbjct: 367 WELSQARAQAVRALLAARLGQPERVT-----AEGR--GDSDPVAPNDSAENRARNRRVEI 419 Query: 337 LV 338 + Sbjct: 420 TL 421 >gnl|CDD|181619 PRK09039, PRK09039, hypothetical protein; Validated. Length = 343 Score = 50.3 bits (121), Expect = 7e-07 Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 11/84 (13%) Query: 265 VISIRGHTDASPFRNIAR--DNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKI 322 V+ + GHTD P R DNW LS RA S + L+ GV DR++ +GF + Sbjct: 264 VLRVDGHTDNVPLSGTGRFRDNWELSSARAISVVKFLIALGVPADRLAA-AGFGEFQ--- 319 Query: 323 ASDPMNSA-----NRRIDILVEDR 341 DP ++ NRRI++ + +R Sbjct: 320 PLDPGDTPEARARNRRIELKLTER 343 >gnl|CDD|180652 PRK06667, motB, flagellar motor protein MotB; Validated. Length = 252 Score = 50.2 bits (120), Expect = 7e-07 Identities = 49/174 (28%), Positives = 70/174 (40%), Gaps = 22/174 (12%) Query: 175 LPPLSKEKILAMKRKKRLQDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNT 234 LP K K L+ +K +I S K + E R G++IS+ + Sbjct: 81 LPSTEKGKQLSQAKKNASSLFKPEIQSN----------KVAVTEDER-GLVISLA---SD 126 Query: 235 PMFDKSSS-IPLPETIVVLQKIGEV---LAHSTEVISIRGHTD--ASPFRNIARDNWRLS 288 F S+ + L E LQKI L + I GHTD + NW LS Sbjct: 127 AFFYPGSAEVKLEENRETLQKIASFIGFLDLAGRNFRIEGHTDNVDVNPEGPWKSNWELS 186 Query: 289 LDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASD-PMNSA-NRRIDILVED 340 RA + + ++ G + ++SGFA R D P A NRRIDI++ Sbjct: 187 GARAVNMLEYILNYGDQSESWFQVSGFAGSRPLATEDTPEGRAYNRRIDIVILT 240 Score = 29.4 bits (66), Expect = 1.3 Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 2/52 (3%) Query: 33 WKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQYFNPFG--KNLMTASKG 82 + + Y D +T+L+ FF++++ N D++ + I F G K T SKG Sbjct: 18 YMLTYGDMVTLLLCFFVMLFTTNDVDENVLQIISASFTGTGFFKGGQTLSKG 69 >gnl|CDD|181095 PRK07734, motB, flagellar motor protein MotB; Reviewed. Length = 259 Score = 46.3 bits (110), Expect = 1e-05 Identities = 44/171 (25%), Positives = 81/171 (47%), Gaps = 12/171 (7%) Query: 180 KEKILAMKRKKRLQDLAKKISSTLSGLVADNIVKGVLFET--TRTGILISIIDQRNTPMF 237 K+K A +KK+ + K + + + + + L +T T G+LI+I+D +F Sbjct: 91 KKKEEAEAKKKKEMEELKAVQKKIDQYIKEKQLSSSL-QTKLTEEGLLITILD---NILF 146 Query: 238 DKSSSIPLPETIVVLQKIGEVLA-HSTEVISIRGHTDASPFRNIA-RDNWRLSLDRAYSA 295 D + E + + ++I +L + I+I GHTD P N NW LS+ RA + Sbjct: 147 DSGKADVRLEDLPLAKEISNLLVSNPPRNITISGHTDNVPIANAQFASNWELSVMRAVNF 206 Query: 296 YQVLMKSGVSEDRISKISGFAHHRLKIASDPM---NSANRRIDILVEDRQG 343 QVL+++ + G+ ++ IAS+ + NRR+++L+ Sbjct: 207 MQVLLENKELDPEKFSAKGYGEYK-PIASNDTAEGRAKNRRVEVLILPLTE 256 >gnl|CDD|181240 PRK08126, PRK08126, hypothetical protein; Provisional. Length = 432 Score = 45.5 bits (108), Expect = 2e-05 Identities = 39/160 (24%), Positives = 64/160 (40%), Gaps = 14/160 (8%) Query: 189 KKRLQDLAKKISST------LSGLVADNIVKGVLF--ETTRTGILISIIDQRNTPMFDKS 240 ++R+ + + L L+ + I +G L E R S + R MF Sbjct: 275 QQRIAAIGRMTPPPAPHRLRLKILLKNEIARGTLSVDEDARH----SSVVFRGDAMFVPG 330 Query: 241 SSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIA-RDNWRLSLDRAYSAYQVL 299 + P ++ KI +A +++ GHTD P R+ N LS RA Q+L Sbjct: 331 QATVNPAMGPLIAKIAREIARVGGKVTVTGHTDNQPIRSAQFASNLVLSEKRAAQVAQML 390 Query: 300 MKSGVSEDRISKI-SGFAHHRLKIASDPMNSANRRIDILV 338 +GV R+ + G A + + NRR++I V Sbjct: 391 QSAGVPASRLEAVGKGDAQPVADNRTPQGRAQNRRVEITV 430 >gnl|CDD|181435 PRK08457, motB, flagellar motor protein MotB; Reviewed. Length = 257 Score = 43.2 bits (102), Expect = 9e-05 Identities = 24/75 (32%), Positives = 44/75 (58%), Gaps = 4/75 (5%) Query: 266 ISIRGHTDASPFRNIA-RDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIAS 324 I++RG+TD SP +D++ L+ RAY+ +VL++ G++ +R+S S + + IA Sbjct: 158 INVRGYTDNSPLNKSRYKDHYELAAARAYNVMKVLIQYGINPNRLS-FSSYGSNN-PIAP 215 Query: 325 DPMNSANRRIDILVE 339 + + NR + VE Sbjct: 216 ND-SLENRLKNNRVE 229 Score = 32.4 bits (74), Expect = 0.16 Identities = 12/37 (32%), Positives = 25/37 (67%) Query: 33 WKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQYF 69 W + YADF+++L+A F+ ++ I+A + +A++ F Sbjct: 16 WAVPYADFLSLLLALFIALYAISAVNKAKVEALKTEF 52 >gnl|CDD|131849 TIGR02802, Pal_lipo, peptidoglycan-associated lipoprotein. Members of this protein are Pal (also called OprL), the Peptidoglycan-Associated Lipoprotein of the Tol-Pal system. The system appears to be involved both in the maintenance of outer membrane integrity and in the import of certain organic molecules as nutrients. Members of this family contain a hydrodrophobic lipoprotein signal sequence, a conserved N-terminal cleavage and modification site, a poorly conserved low-complexity region, together comprising about 65 amino acids, and a well-conserved C-terminal domain. The seed alignment for this model includes only the conserved C-terminal domain. Length = 104 Score = 39.8 bits (94), Expect = 9e-04 Identities = 23/80 (28%), Positives = 33/80 (41%), Gaps = 8/80 (10%) Query: 237 FDKSSSIPLPETIVVLQKIGEVLA-HSTEVISIRGHTD--ASPFRNIARDNWRLSLDRAY 293 FD SS E +L L + + ++I GHTD + N+A L RA Sbjct: 4 FDFDSSDLKSEAQAILDAHAAYLKKNPSVRVTIEGHTDERGTREYNLA-----LGERRAN 58 Query: 294 SAYQVLMKSGVSEDRISKIS 313 + L GVS +I +S Sbjct: 59 AVKDYLQAKGVSASQIETVS 78 >gnl|CDD|182507 PRK10510, PRK10510, putative outer membrane lipoprotein; Provisional. Length = 219 Score = 39.1 bits (91), Expect = 0.002 Identities = 38/129 (29%), Positives = 59/129 (45%), Gaps = 10/129 (7%) Query: 212 VKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLA-HSTEVISIRG 270 ++G TR+G I I++ N FD SS+ P L + VL + +++ G Sbjct: 92 MRGTGVSVTRSGDNI-ILNMPNNVTFDSSSATLKPAGANTLTGVAMVLKEYPKTAVNVVG 150 Query: 271 HTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPM--- 327 +TD++ ++ N RLS RA S L+ GV RI G IAS+ Sbjct: 151 YTDSTGSHDL---NMRLSQQRADSVASALITQGVDASRIRT-QGMGPAN-PIASNSTAEG 205 Query: 328 NSANRRIDI 336 + NRR++I Sbjct: 206 KAQNRRVEI 214 >gnl|CDD|180754 PRK06925, PRK06925, flagellar motor protein MotS; Reviewed. Length = 230 Score = 37.5 bits (87), Expect = 0.005 Identities = 30/109 (27%), Positives = 49/109 (44%), Gaps = 5/109 (4%) Query: 236 MFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIAR-DNWRLSLDRAYS 294 +F+ + L + L KIG +L+ I + GHTD+ P NW LS RA S Sbjct: 121 LFETGEADILKQAEPFLHKIGVLLSTIPNDIKVEGHTDSRPISTYRYPSNWELSAARASS 180 Query: 295 AYQVLM-KSGVSEDRISKISGFAHHR-LKIASDPMN-SANRRIDILVED 340 + K + R + G+A + + + N NRR++I++ D Sbjct: 181 VIRYFTSKEKLDSSRFIAV-GYADTKPVVPNTTEENMQENRRVEIVISD 228 Score = 29.0 bits (65), Expect = 1.7 Identities = 19/100 (19%), Positives = 44/100 (44%), Gaps = 10/100 (10%) Query: 32 SWKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQYFNPFGKNLMTASKGIFDEQNPPE 91 W + ++D +T+++ FF++++ ++ D KA + F +G P Sbjct: 14 KWMVTFSDLITLILVFFILLFSMSQIDAQKFKAAVESFQ---------QRGSLGFL-PSA 63 Query: 92 RSSQNKIDLSIDEHITKNSVDLKIGSTNQKKQYQRLENNI 131 +N + S DE ++ +D + N+ + L++ I Sbjct: 64 IEFENPAESSEDEEKQEDQLDELLKKVNEYIEENELKSVI 103 >gnl|CDD|181620 PRK09040, PRK09040, hypothetical protein; Provisional. Length = 214 Score = 36.1 bits (84), Expect = 0.011 Identities = 42/162 (25%), Positives = 69/162 (42%), Gaps = 18/162 (11%) Query: 184 LAMKRKKRLQDLAKKISSTLSGLVADNIVKG-VLFETTRTGILISIIDQRNTPMFDKSSS 242 L + K+R + ++ TL +A + G V R GI S+ +F +S Sbjct: 47 LEAEVKQRQAEAQRRK--TLEQALAGPLAAGRVTLVNGRIGISGSV-------LFALNSD 97 Query: 243 IPLPETIVVLQKIGEVLA----HSTEVISIRGHTDASPFRNIAR---DNWRLSLDRAYSA 295 PE +L+ + LA E++ + G TD P R R DNW LS RA + Sbjct: 98 QLQPEGRELLKSLAGPLAAYLRARDEILMVSGFTDDQPVRAGNRRFADNWELSAQRALTV 157 Query: 296 YQVLMKSGVSEDRISKISGFAHHRLKIASDPMNSA-NRRIDI 336 + L+ +GV + + + + +D A NRR++I Sbjct: 158 TRALIDAGVPASSVFAAAFGSEQPVASNADDEGRAKNRRVEI 199 >gnl|CDD|168775 PRK07034, PRK07034, hypothetical protein; Provisional. Length = 536 Score = 34.0 bits (77), Expect = 0.056 Identities = 30/96 (31%), Positives = 45/96 (46%), Gaps = 14/96 (14%) Query: 252 LQKIGEVLAHSTEVISIRGHTDASPFRNIA-RDNWRLSLDRAYSAYQVLMKSG-VSEDRI 309 ++++G LA I + GHTD PFR+ + +N +LS RA L +S ++E Sbjct: 415 IERLGLALAPWPGDIEVIGHTDNKPFRSTSGNNNLKLSAARASVVADKLRESTQINETHQ 474 Query: 310 SKISGFAHHRLKIASDPM--------NSANRRIDIL 337 +IS SDP+ NRR+DIL Sbjct: 475 REISAIGRGE----SDPLADNATEEGRKRNRRVDIL 506 >gnl|CDD|182643 PRK10680, PRK10680, molybdopterin biosynthesis protein MoeA; Provisional. Length = 411 Score = 30.4 bits (69), Expect = 0.68 Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 6/65 (9%) Query: 225 LISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIARDN 284 L+S+ + T M + + + ET+ ++Q G + A +++S D F N A D Sbjct: 7 LMSL-ETALTEMLSRVTPLTATETLPLVQCFGRITAS--DIVS---PLDVPGFDNSAMDG 60 Query: 285 WRLSL 289 + + L Sbjct: 61 YAVRL 65 >gnl|CDD|163501 TIGR03789, pdsO, proteobacterial sortase system OmpA family protein. A newly defined histidine kinase (TIGR03785) and response regulator (TIGR03787) gene pair occurs exclusively in Proteobacteria, mostly of marine origin, nearly all of which contain a subfamily 6 sortase (TIGR03784) and its single dedicated target protein (TIGR03788) adjacent to to the sortase. This protein family shows up in only in those species with the histidine kinase/response regulator gene pair, and often adjacent to that pair. It belongs to the OmpA protein family (pfam00691). Its function is unknown. We assign the gene symbol pdsO, for Proteobacterial Dedicated Sortase system OmpA family protein. Length = 239 Score = 30.2 bits (68), Expect = 0.78 Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 4/60 (6%) Query: 252 LQKIGEVLAHSTEV-ISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRIS 310 L ++ ++ S E+ + + G+ D R ++ N LS R L+K GV E R++ Sbjct: 154 LDEVATLMKQSPELKLDLSGYADR---RGDSQYNQALSEQRVLEVRSYLIKQGVDEARLT 210 >gnl|CDD|179889 PRK04885, ppnK, inorganic polyphosphate/ATP-NAD kinase; Provisional. Length = 265 Score = 29.4 bits (67), Expect = 1.5 Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 4/32 (12%) Query: 197 KKISSTLSGLVADNIVKGVLFETTR-TGILIS 227 K+I TL VAD + GVLFE R G+ +S Sbjct: 126 KRIEGTL---VADVYINGVLFERFRGDGLCVS 154 >gnl|CDD|162714 TIGR02123, TRAP_fused, TRAP transporter, 4TM/12TM fusion protein. In some species, the 12-transmembrane spanning and 4-transmembrane spanning components of tripartite ATP-independent periplasmic (TRAP)-type transporters are fused. This model describes such transporters, found in the Archaea and in Bacteria. Length = 613 Score = 29.2 bits (66), Expect = 1.5 Identities = 5/41 (12%), Positives = 12/41 (29%), Gaps = 5/41 (12%) Query: 33 WKIVYADFMTVLMAFFLVMWIINATDDDTKK----AIEQYF 69 + + A F ++ +V + A+E Sbjct: 348 YSPIRAAFYSI-ALTLIVSLLSRKDTRMGLGEIFGALEDGA 387 >gnl|CDD|178647 PLN03099, PIR, Protein PIR; Provisional. Length = 1232 Score = 29.2 bits (65), Expect = 1.9 Identities = 22/105 (20%), Positives = 46/105 (43%), Gaps = 26/105 (24%) Query: 166 SINKEENYFLPPLSKEKILAMKRKK---RLQDLAKKISSTLSGLVADNIVKGVLFETTRT 222 +++ E + + P + + M+R K R DLA I+ ++ + +N+ LFE + Sbjct: 688 AVDNGEKFSVQPKRYDALFKMRRVKILGRTIDLASLIAQRMNKIFRENL--DFLFERFES 745 Query: 223 GILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVIS 267 L S+++ LQ++ E+L + E++S Sbjct: 746 QDLCSVVE---------------------LQRLVEILRLTHELLS 769 >gnl|CDD|149163 pfam07932, DAP_C, D-aminopeptidase, domain C. D-aminopeptidase is a dimeric enzyme with each monomer being composed of three domains. Domain C is organized to form a beta barrel made up of eight antiparallel beta strands. It is connected to domain B by a short linker sequence, and interacts extensively with the domain A, the catalytic domain. The gamma loop of domain C forms part of the wall of the catalytic pocket; domain C is in fact thought to confer substrate and inhibitor specificity to the enzyme. Length = 97 Score = 28.2 bits (63), Expect = 3.7 Identities = 7/26 (26%), Positives = 10/26 (38%) Query: 270 GHTDASPFRNIARDNWRLSLDRAYSA 295 G R + D W L+ R+ A Sbjct: 36 GKGPMELMRYLGPDVWLLACRRSMDA 61 >gnl|CDD|136018 PRK06721, PRK06721, threonine synthase; Reviewed. Length = 352 Score = 27.7 bits (61), Expect = 4.9 Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 2/43 (4%) Query: 243 IPLPETIVVLQKIGEVLAHSTEVISIRGHTDAS--PFRNIARD 283 I +PE + K+ + +A+ E+ISI G+ D + RNIA + Sbjct: 103 IVIPEGKIAHGKLAQAVAYGAEIISIEGNFDDALKAVRNIAAE 145 >gnl|CDD|182744 PRK10802, PRK10802, peptidoglycan-associated outer membrane lipoprotein; Provisional. Length = 173 Score = 27.5 bits (61), Expect = 5.4 Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 7/50 (14%) Query: 266 ISIRGHTD--ASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKIS 313 +++ GH D +P NIA L RA + L GVS D+IS +S Sbjct: 103 VTVEGHADERGTPEYNIA-----LGERRANAVKMYLQGKGVSADQISIVS 147 >gnl|CDD|180494 PRK06260, PRK06260, threonine synthase; Validated. Length = 397 Score = 27.2 bits (61), Expect = 6.9 Identities = 10/29 (34%), Positives = 16/29 (55%) Query: 245 LPETIVVLQKIGEVLAHSTEVISIRGHTD 273 LP V L K+ + L H +V+ + G+ D Sbjct: 145 LPAGKVALGKLAQALLHGAKVLEVDGNFD 173 >gnl|CDD|178050 PLN02431, PLN02431, ferredoxin--nitrite reductase. Length = 587 Score = 27.0 bits (60), Expect = 7.0 Identities = 12/39 (30%), Positives = 19/39 (48%) Query: 170 EENYFLPPLSKEKILAMKRKKRLQDLAKKISSTLSGLVA 208 E+N +P + K+ A+ + LQ + L GLVA Sbjct: 432 EQNIIIPNVPNSKVEALLAEPLLQRFSPNPGLLLKGLVA 470 >gnl|CDD|179648 PRK03776, PRK03776, phosphoglycerol transferase I; Provisional. Length = 762 Score = 27.0 bits (60), Expect = 7.7 Identities = 20/69 (28%), Positives = 29/69 (42%), Gaps = 7/69 (10%) Query: 180 KEKILAMKRK-KRLQDLAKKISSTLSGLVADNIVKGVLFE--TTRTGILISIIDQRNTPM 236 KEK LA K RL + K+I D + F R +L+ + D+R P+ Sbjct: 471 KEKTLAWKPDIIRLWNFPKEIKD----FTIDQQKNMIAFSGSHFRLPLLLRVSDKRVEPL 526 Query: 237 FDKSSSIPL 245 + S PL Sbjct: 527 PESEYSAPL 535 >gnl|CDD|148567 pfam07019, Rab5ip, Rab5-interacting protein (Rab5ip). This family consists of several Rab5-interacting protein (RIP5 or Rab5ip ) sequences. The ras-related GTPase rab5 is rate-limiting for homotypic early endosome fusion. Rab5ip represents a novel rab5 interacting protein that may function on endocytic vesicles as a receptor for rab5-GDP and participate in the activation of rab5. Length = 81 Score = 26.8 bits (60), Expect = 8.6 Identities = 6/24 (25%), Positives = 12/24 (50%), Gaps = 1/24 (4%) Query: 31 GSWKIVYADFMTVLMAFFLVMWII 54 G W++ +T L F++ W + Sbjct: 57 GRWELFTEGLLTGLAT-FVLTWTL 79 >gnl|CDD|130828 TIGR01767, MTRK, 5-methylthioribose kinase. This enzyme is involved in the methionine salvage pathway in certain bacteria. Length = 370 Score = 26.8 bits (59), Expect = 9.1 Identities = 10/30 (33%), Positives = 17/30 (56%) Query: 274 ASPFRNIARDNWRLSLDRAYSAYQVLMKSG 303 A P+ + ++W L+LDRA L++ G Sbjct: 28 ALPYVRVVGESWPLTLDRARIESSALIRQG 57 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.315 0.131 0.366 Gapped Lambda K H 0.267 0.0643 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 5,378,216 Number of extensions: 335082 Number of successful extensions: 774 Number of sequences better than 10.0: 1 Number of HSP's gapped: 758 Number of HSP's successfully gapped: 60 Length of query: 343 Length of database: 5,994,473 Length adjustment: 94 Effective length of query: 249 Effective length of database: 3,963,321 Effective search space: 986866929 Effective search space used: 986866929 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: 57 (25.9 bits)