RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780511|ref|YP_003064924.1| flagellar biosynthesis protein FliR [Candidatus Liberibacter asiaticus str. psy62] (248 letters) >gnl|CDD|183741 PRK12780, fliR, flagellar biosynthesis protein FliR; Reviewed. Length = 251 Score = 147 bits (373), Expect = 2e-36 Identities = 81/246 (32%), Positives = 133/246 (54%), Gaps = 5/246 (2%) Query: 1 MTISPEIIMMSLFLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDTIDL 60 M++ ++ +FLI CR+G C+M++PG S +P+QVRL A++ S+ + P L Sbjct: 1 MSLPLGDSVLGVFLIFCRIGGCLMVVPGYSSPRVPVQVRLFIALSVSLAVTPLLLPL--F 58 Query: 61 QNFVNRAYYSKLVMV---ELFLGCVHGLLIRVYTLGLQFTGSVISTAIGLNLQTSMGISD 117 + F+ A ++ ++ E G + GLL RV+ L+ + ++T IGL + D Sbjct: 59 RPFLEGAAPAETLLWIGSETLTGLLIGLLGRVFFFALETMATAVATMIGLGSIPGTPVED 118 Query: 118 SLAETPLNSLIGIIGLLALWVIDFHHQVFYALVKSYGTIPIGQELNFGNIFSSFVNMLQT 177 + A L SLI + + D H ++F LV SY IP G+ V+ L Sbjct: 119 TEAIPALVSLIVLTATALFFATDLHWELFRGLVASYDRIPPGEGFGGQTALVQLVDQLSE 178 Query: 178 TFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVY 237 F + LR++SPF+ + ++ N+++GL+NKL P IP+YFISTP+++ G L L L + Sbjct: 179 AFTLALRIASPFIIYSVIVNLAVGLVNKLTPTIPVYFISTPFVLFGGLLLLYLLSSEFLT 238 Query: 238 QFSHSF 243 QFS + Sbjct: 239 QFSLGY 244 >gnl|CDD|180211 PRK05701, fliR, flagellar biosynthesis protein FliR; Reviewed. Length = 242 Score = 142 bits (362), Expect = 6e-35 Identities = 70/233 (30%), Positives = 118/233 (50%), Gaps = 5/233 (2%) Query: 12 LFLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDT-IDLQNFVNRAYYS 70 FL R+G+ +M +PG S IP +V+L A+A + + P L + L + Sbjct: 8 FFLPFVRIGALLMTMPGFSERSIPARVKLGLALALTFAVAPLLPVPDVPLFSLD----LL 63 Query: 71 KLVMVELFLGCVHGLLIRVYTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGI 130 LV+ E+ +G GL+ ++ LQF G +I +GL+ + + + L + + Sbjct: 64 LLVIQEILIGLALGLVAQILFAALQFAGQIIDMQMGLSFASVVDPTSGQQSPLLGQFLTL 123 Query: 131 IGLLALWVIDFHHQVFYALVKSYGTIPIGQELNFGNIFSSFVNMLQTTFMIMLRLSSPFL 190 + LL +D HH + ALV S+ T+PIG L GN F L F+I L+L+ P + Sbjct: 124 LALLLFLALDGHHLLIRALVDSFETLPIGGFLLNGNAFLLLAKALSAMFLIGLQLALPII 183 Query: 191 FFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSF 243 ++ N+++GL+N+ PQ+ I+ I P I +G L L L + ++ F + F Sbjct: 184 VLLLLVNLALGLINRTAPQLNIFVIGFPLKITVGLLLLALILPALMPVFENLF 236 >gnl|CDD|130467 TIGR01400, fliR, flagellar biosynthetic protein FliR. This model recognizes the FliR protein of bacterial flagellar biosynthesis. It distinguishes FliR from the homologous proteins bacterial type III protein secretion systems, known by names such as YopT, EscT, and HrcT. Length = 245 Score = 104 bits (261), Expect = 2e-23 Identities = 65/236 (27%), Positives = 117/236 (49%), Gaps = 1/236 (0%) Query: 13 FLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDTIDLQNFVNRAYYSKL 72 FL RVG+ +M +P S +P++VRL A+A + ++LPFL + N + ++ L Sbjct: 5 FLPFVRVGAFLMTMPFFSERLVPVRVRLYLALALTFIVLPFLPPSPPPVN-LFSLFFVLL 63 Query: 73 VMVELFLGCVHGLLIRVYTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGIIG 132 ++ E+ +G + G ++++ G +IS +GL + + S L ++ ++ Sbjct: 64 LLQEILIGLLIGFILQLLFAAFVLAGEIISMQMGLGFASMVDPSSGEQTPILGQILYLLA 123 Query: 133 LLALWVIDFHHQVFYALVKSYGTIPIGQELNFGNIFSSFVNMLQTTFMIMLRLSSPFLFF 192 LL +D HH + LV S+ ++P+G GN F + L F++ L L+ P + Sbjct: 124 LLLFLALDGHHLLILGLVDSFKSLPVGSFFLNGNFFELILKALSDMFLLGLLLALPIIAA 183 Query: 193 YIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSFLYGFF 248 ++ N+ +GL+N+ PQI I+ I P I LG + L L + + F F Sbjct: 184 LLLVNLVLGLVNRAAPQINIFSIGFPLKIALGLILLYLILPGMAILFKDLFEELLE 239 >gnl|CDD|183736 PRK12772, PRK12772, bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional. Length = 609 Score = 69.7 bits (171), Expect = 7e-13 Identities = 48/233 (20%), Positives = 110/233 (47%), Gaps = 1/233 (0%) Query: 11 SLFLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDTIDLQNFVNRAYYS 70 +L LI R+ S +++P P V++ A+ + +L+P + D + N Sbjct: 9 ALILIFLRIFSFFIMVPIFFPKGTPNIVKVSLALIIAYMLVPGI-DYSSVNTINNSTLLI 67 Query: 71 KLVMVELFLGCVHGLLIRVYTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGI 130 + E+ G + G + + + ++ GS++ +G ++ T + + T + L+ Sbjct: 68 FYCINEILTGLILGFITNLCFVCVRIAGSMMDLQVGFSMMTMFDPTSNSNTTLIERLLYW 127 Query: 131 IGLLALWVIDFHHQVFYALVKSYGTIPIGQELNFGNIFSSFVNMLQTTFMIMLRLSSPFL 190 + ++ID HH + ALV+S+ I IG+ +N+ F I ++++ P + Sbjct: 128 FSTVIFFIIDGHHMLIRALVESFNVIKIGKFFLNQESIMHVINVFIQYFYIGIKIAIPIV 187 Query: 191 FFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSF 243 ++ ++++GL+++ VPQ+ I + P I +G +++ + + S +F Sbjct: 188 LIILITDLTLGLISRTVPQLNIMILGLPIKILVGLTAFVIALPLFLKVISSAF 240 >gnl|CDD|130468 TIGR01401, fliR_like_III, type III secretion protein SpaR/YscT/HrcT. This model represents members of bacterial type III secretion systems homologous to the flagellar biosynthetic protein FliR (TIGRFAMs:TIGR01400). Length = 253 Score = 55.4 bits (134), Expect = 2e-08 Identities = 50/236 (21%), Positives = 98/236 (41%), Gaps = 11/236 (4%) Query: 9 MMSLFLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDTIDLQNFVNRAY 68 +++L L R+ +LLP + +P +R + ++ + P + L Sbjct: 8 LIALALAFARILPMFLLLPFFASGSLPGLIRNGVIVVLALPIAPHIST--ALLALDITFS 65 Query: 69 YSKLVMVELFLGCVHGLLIRVYTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLI 128 + L++ E+ +G + G L+ + + G +I G L + + + +PL Sbjct: 66 LAGLLLKEVIIGLLLGFLLALPFWIFEAAGFLIDNQRGATLSSIFNPATGVDTSPL---- 121 Query: 129 GIIGLLALWVIDFHHQVFYALVK----SYGTIPIGQELNFGNIFSSFV-NMLQTTFMIML 183 G++ L VI L+ SY P+ LNF SFV + L + L Sbjct: 122 GVLFNQFLIVIFLTSGGMEFLLGALYESYRLWPLTAFLNFSAQGLSFVLSQLDQMMALAL 181 Query: 184 RLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQF 239 L++P + + +++GLL++ PQ+ ++ +S P L L L L ++ Sbjct: 182 LLAAPVIIVLFLIELALGLLSRFAPQLNVFILSLPIKSLLALLILLLYFATLLEHI 237 >gnl|CDD|185247 PRK15349, PRK15349, type III secretion system protein SsaT; Provisional. Length = 259 Score = 32.2 bits (73), Expect = 0.11 Identities = 44/198 (22%), Positives = 88/198 (44%), Gaps = 3/198 (1%) Query: 44 MAFSIVLLPFLWDTIDLQNFVNRAYYSKLVMVELFLGCVHGLLIRVYTLGLQFTGSVIST 103 M+ + +LP ++ + + + LV E+ +G + G V + G ++ T Sbjct: 45 MSLTFPILPIIYQQKIMMHIGKDYSWLGLVTGEVIIGFLIGFCAAVPFWAVDMAGFLLDT 104 Query: 104 AIGLNLQTSMGISDSLAETPLNSLIGIIGLLALWVIDFHHQ-VFYALVKSYGTIPIGQEL 162 G + T S AET L L+ L ++ I + + L +SY +P G+ L Sbjct: 105 LRGATMGTIFN-STIEAETSLFGLLFSQFLCVIFFISGGMEFILNILYESYQYLPPGRTL 163 Query: 163 NFGNIFSSFVNM-LQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLI 221 F F ++ +T + + + S P + ++ ++++GLLN+ Q+ ++F S P Sbjct: 164 LFDRQFLKYIQAEWRTLYQLCISFSLPAIICMVLADLALGLLNRSAQQLNVFFFSMPLKS 223 Query: 222 GLGSLFLCLSIEIIVYQF 239 L L L +S ++ + Sbjct: 224 ILVLLTLLISFPYALHHY 241 >gnl|CDD|162842 TIGR02402, trehalose_TreZ, malto-oligosyltrehalose trehalohydrolase. Members of this family are the trehalose biosynthetic enzyme malto-oligosyltrehalose trehalohydrolase, formally known as 4-alpha-D-{(1->4)-alpha-D-glucano}trehalose trehalohydrolase (EC 3.2.1.141). It is the TreZ protein of the TreYZ pathway for trehalose biosynthesis, and alternative to the OtsAB system. Length = 542 Score = 28.5 bits (64), Expect = 1.9 Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 7/34 (20%) Query: 119 LAETPLN--SLI-----GIIGLLALWVIDFHHQV 145 +AE+ LN SL+ G GL A W DFHH + Sbjct: 278 IAESDLNDPSLVTPREDGGYGLDAQWNDDFHHAL 311 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 0.334 0.148 0.450 Gapped Lambda K H 0.267 0.0726 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 4,056,009 Number of extensions: 263200 Number of successful extensions: 991 Number of sequences better than 10.0: 1 Number of HSP's gapped: 980 Number of HSP's successfully gapped: 64 Length of query: 248 Length of database: 5,994,473 Length adjustment: 91 Effective length of query: 157 Effective length of database: 4,028,145 Effective search space: 632418765 Effective search space used: 632418765 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 39 (21.6 bits) S2: 56 (25.4 bits)