RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780690|ref|YP_003065103.1| flagellar biosynthesis protein FlhB [Candidatus Liberibacter asiaticus str. psy62] (354 letters) >3bzs_A ESCU; auto cleavage protein, intein, T3SS, TTSS, asparagine cyclization, membrane, membrane protein, protein transport; 1.48A {Escherichia coli} PDB: 3bzr_A 3bzp_A 3bzt_A 3c03_A (A:) Length = 137 Score = 161 bits (409), Expect = 1e-40 Identities = 42/133 (31%), Positives = 70/133 (52%) Query: 221 KLKMSKQEIKDEIKQSYGNPIIKNRQKSIARSRIRHKMMEATSRATIIITNPTHYALALR 280 MSK E+K E K + GNP IK ++ + + ++T+I+ +PTH A+ L Sbjct: 4 MASMSKDEVKREAKDTDGNPEIKGERRRLHSEIQSGSLANNIKKSTVIVKDPTHIAICLY 63 Query: 281 YIQTENDAPVLVAKGQNLIAKKMRKIAYEHNIPIFEEPSLARSLFKQVPINSAIPPVFYK 340 Y E P+++ G++ A ++ K+A ++IP+ E+ LARSL+K + I F++ Sbjct: 64 YKLGETPLPLVIETGKDAKALQIIKLAELYDIPVIEDIPLARSLYKNIHKGQYITEDFFE 123 Query: 341 AVAQLIYKIYHKK 353 VAQLI Sbjct: 124 PVAQLIRIAIDLD 136 >2jli_A YSCU, YOP proteins translocation protein; cell membrane, transmembrane, protein transport, type III secretion system, plasmid, membrane; 1.13A {Yersinia pestis} (A:) Length = 123 Score = 144 bits (365), Expect = 2e-35 Identities = 36/119 (30%), Positives = 66/119 (55%) Query: 228 EIKDEIKQSYGNPIIKNRQKSIARSRIRHKMMEATSRATIIITNPTHYALALRYIQTEND 287 EIK E K+ G+P IK++++ + M E R+++++ NPTH A+ + Y + E Sbjct: 1 EIKREYKEMEGSPEIKSKRRQFHQEIQSRNMRENVKRSSVVVANPTHIAIGILYKRGETP 60 Query: 288 APVLVAKGQNLIAKKMRKIAYEHNIPIFEEPSLARSLFKQVPINSAIPPVFYKAVAQLI 346 P++ K + + +RKIA E +PI + LAR+L+ ++ IP +A A+++ Sbjct: 61 LPLVTFKYTDAQVQTVRKIAEEEGVPILQRIPLARALYWDALVDHYIPAEQIEATAEVL 119 >2jlj_A YSCU, YOP proteins translocation protein U; cell membrane, transmembrane, yersinia pesits, protein transport, type III secretion system, plasmid; 1.3A {Yersinia pestis} PDB: 2jlh_A* 2v5g_A 2w0r_A (A:38-144) Length = 107 Score = 119 bits (300), Expect = 6e-28 Identities = 25/97 (25%), Positives = 50/97 (51%) Query: 257 KMMEATSRATIIITNPTHYALALRYIQTENDAPVLVAKGQNLIAKKMRKIAYEHNIPIFE 316 M E R+++++ TH A+ + Y + E P++ K + + +RKIA E +PI + Sbjct: 2 NMRENVKRSSVVVAAATHIAIGILYKRGETPLPLVTFKYTDAQVQTVRKIAEEEGVPILQ 61 Query: 317 EPSLARSLFKQVPINSAIPPVFYKAVAQLIYKIYHKK 353 LAR+L+ ++ IP +A A+++ + + Sbjct: 62 RIPLARALYWDALVDHYIPAEQIEATAEVLRWLERQN 98 >3bzy_B ESCU; auto cleavage protein, flagella, intein, T3SS, membrane, membrane protein, protein transport; 1.20A {Escherichia coli} (B:) Length = 83 Score = 103 bits (260), Expect = 2e-23 Identities = 28/79 (35%), Positives = 44/79 (55%) Query: 272 PTHYALALRYIQTENDAPVLVAKGQNLIAKKMRKIAYEHNIPIFEEPSLARSLFKQVPIN 331 PTH A+ L Y E P+++ G++ A ++ K+A ++IP+ E+ LARSL K + Sbjct: 1 PTHIAICLYYKLGETPLPLVIETGKDAKALQIIKLAELYDIPVIEDIPLARSLDKNIHKG 60 Query: 332 SAIPPVFYKAVAQLIYKIY 350 I F++ VAQLI Sbjct: 61 QYITEDFFEPVAQLIRIAI 79 >2vt1_B Surface presentation of antigens protein SPAS; specificity switch, virulence, transmembrane, inner membrane, FLHB, YSCU, T3SS, plasmid; 2.0A {Shigella flexneri} (B:1-68) Length = 68 Score = 94.3 bits (235), Expect = 2e-20 Identities = 20/65 (30%), Positives = 28/65 (43%) Query: 272 PTHYALALRYIQTENDAPVLVAKGQNLIAKKMRKIAYEHNIPIFEEPSLARSLFKQVPIN 331 PTH A+ + + AP + N A +RK A E IP + LAR L+K Sbjct: 1 PTHIAIGIYFNPEIAPAPFISLIETNQCALAVRKYANEVGIPTVRDVKLARKLYKTHTKY 60 Query: 332 SAIPP 336 S + Sbjct: 61 SFVDF 65 >3c01_E Surface presentation of antigens protein SPAS; auto cleavage protein, flagella, ESCU, YSCU, intein, T3SS, membrane, inner membrane; 2.60A {Salmonella typhimurium} (E:1-62) Length = 62 Score = 87.7 bits (218), Expect = 2e-18 Identities = 16/61 (26%), Positives = 26/61 (42%) Query: 272 PTHYALALRYIQTENDAPVLVAKGQNLIAKKMRKIAYEHNIPIFEEPSLARSLFKQVPIN 331 PTH + + + P++ N A +R A + +P+ + LARSLFK Sbjct: 1 PTHITIGIYFKPELMPIPMISVYETNQRALAVRAYAEKVGVPVIVDIKLARSLFKTHRRY 60 Query: 332 S 332 Sbjct: 61 D 61 >3bzy_A ESCU; auto cleavage protein, flagella, intein, T3SS, membrane, membrane protein, protein transport; 1.20A {Escherichia coli} (A:) Length = 54 Score = 76.2 bits (188), Expect = 7e-15 Identities = 15/51 (29%), Positives = 25/51 (49%) Query: 221 KLKMSKQEIKDEIKQSYGNPIIKNRQKSIARSRIRHKMMEATSRATIIITN 271 MSK E+K E K + GNP IK ++ + + ++T+I+ N Sbjct: 4 MASMSKDEVKREAKDTDGNPEIKGERRRLHSEIQSGSLANNIKKSTVIVKN 54 >2vt1_A Surface presentation of antigens protein SPAS; specificity switch, virulence, transmembrane, inner membrane, FLHB, YSCU, T3SS, plasmid; 2.0A {Shigella flexneri} (A:) Length = 52 Score = 74.6 bits (184), Expect = 2e-14 Identities = 11/50 (22%), Positives = 24/50 (48%) Query: 222 LKMSKQEIKDEIKQSYGNPIIKNRQKSIARSRIRHKMMEATSRATIIITN 271 + M KQEIK E + G+ K+R++ + + + + +++ N Sbjct: 3 MMMDKQEIKREYIEQEGHFETKSRRRELHIEILSEQTKSDIRNSKLVVMN 52 >3c01_A Surface presentation of antigens protein SPAS; auto cleavage protein, flagella, ESCU, YSCU, intein, T3SS, membrane, inner membrane; 2.60A {Salmonella typhimurium} (A:) Length = 48 Score = 69.6 bits (171), Expect = 6e-13 Identities = 12/48 (25%), Positives = 28/48 (58%) Query: 224 MSKQEIKDEIKQSYGNPIIKNRQKSIARSRIRHKMMEATSRATIIITN 271 M K+E+K E+K+ GNP +K++++ + + ++ + +I+ N Sbjct: 1 MDKEEVKREMKEQEGNPEVKSKRREVHMEILSEQVKSDIENSRLIVAN 48 >3cx8_B RHO guanine nucleotide exchange factor 11; signal transduction, protein complex, GTP-binding, lipoprotein, membrane, nucleotide-binding; HET: GSP; 2.00A {Rattus norvegicus} PDB: 3cx6_B* 3cx7_B* 1htj_F (B:) Length = 203 Score = 27.7 bits (62), Expect = 2.2 Identities = 11/45 (24%), Positives = 22/45 (48%), Gaps = 5/45 (11%) Query: 270 TNPTHYALALRYIQTEND-APV---LVAKG-QNLIAKKMRKIAYE 309 ++P + + LRYI ++ D P+ L ++ Q K R + + Sbjct: 31 SHPAYLVVFLRYILSQADPGPLLFYLCSEVYQQTNPKDSRSLGKD 75 >2dn9_A DNAJ homolog subfamily A member 3; J-domain, TID1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} (A:) Length = 79 Score = 27.3 bits (60), Expect = 2.9 Identities = 8/56 (14%), Positives = 21/56 (37%) Query: 218 WYSKLKMSKQEIKDEIKQSYGNPIIKNRQKSIARSRIRHKMMEATSRATIIITNPT 273 +Y L + + + EIK++Y K + + + A ++++ Sbjct: 9 YYQILGVPRNASQKEIKKAYYQLAKKYHPDTNKDDPKAKEKFSQLAEAYEVLSDEV 64 >2csu_A 457AA long hypothetical protein; structural genomics, PH0766, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.20A {Pyrococcus horikoshii OT3} (A:275-457) Length = 183 Score = 27.2 bits (60), Expect = 3.0 Identities = 9/46 (19%), Positives = 21/46 (45%) Query: 276 ALALRYIQTENDAPVLVAKGQNLIAKKMRKIAYEHNIPIFEEPSLA 321 + + N+ PVL +++K +++ ++ IP +E P Sbjct: 118 GIIRAVKEVNNEKPVLAXFXAGYVSEKAKELLEKNGIPTYERPEDV 163 >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 = 27.1 bits (59), Expect = 3.4 Identities = 19/155 (12%), Positives = 46/155 (29%), Gaps = 24/155 (15%) Query: 95 VIPGLLLFMMFGIGSYLIQRIPVLNL-NHVKPSFKRVSLREGIKRIYSINNLVNFMKSFV 153 + L I P L + + +K + I + V Sbjct: 176 ALTMLSRVDASVPKPQAICLAPSRELARQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKID 235 Query: 154 KIILVGTII---------TISLTENYFTMLDFISANPHSILYHAFF--TVRKVLIMI--- 199 I++GT + + +LD ++L ++ ++ Sbjct: 236 AQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEA----DNMLDQQGLGDQSMRIKHLLPRN 291 Query: 200 ---LLFIATLT--VLDIGWSYHQWYSKLKMSKQEI 229 +LF AT + V + +++++ +E+ Sbjct: 292 TQIVLFSATFSERVEKYAERFAPNANEIRLKTEEL 326 >2ys8_A RAB-related GTP-binding protein RABJ; DNAJ domain, RAS-associated protein RAP1, structural genomics, NPPSFA; NMR {Homo sapiens} (A:) Length = 90 Score = 26.9 bits (59), Expect = 4.0 Identities = 5/56 (8%), Positives = 13/56 (23%), Gaps = 1/56 (1%) Query: 218 WYSKLKMSKQEIKDEIKQSYGNPIIKNRQKSIARSRIRHKMMEATSRATIIITNPT 273 + L + +DE+ ++Y + A + Sbjct: 29 SWDMLGVKPGASRDEVNKAYRKLAVLLHPDKCVAPGSEDAFKAV-VNARTALLKNI 83 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 0.324 0.137 0.389 Gapped Lambda K H 0.267 0.0499 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 2,493,464 Number of extensions: 108131 Number of successful extensions: 437 Number of sequences better than 10.0: 1 Number of HSP's gapped: 437 Number of HSP's successfully gapped: 32 Length of query: 354 Length of database: 4,956,049 Length adjustment: 89 Effective length of query: 265 Effective length of database: 1,947,404 Effective search space: 516062060 Effective search space used: 516062060 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 55 (25.5 bits)