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)