RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

Searching..................................................done

Query= gi|254780519|ref|YP_003064932.1| flagellar biosynthesis protein
FliQ [Candidatus Liberibacter asiaticus str. psy62]
         (88 letters)



>gnl|CDD|180349 PRK06010, fliQ, flagellar biosynthesis protein FliQ; Reviewed.
          Length = 88

 Score =  110 bits (276), Expect = 1e-25
 Identities = 50/88 (56%), Positives = 68/88 (77%)

Query: 1  MNEADVLEIARAAMWTILSSSAPVLFSAMFLGILIAFLQALTQIQEVTLTFVPKIIAVFI 60
          MNEAD L+I R A+WT+L +S P + +AM +G+ IA  QALTQIQE+TLTFVPKI+A+F+
Sbjct: 1  MNEADALDIVRDAIWTVLVASGPAVLAAMVVGVAIALFQALTQIQEMTLTFVPKIVAIFV 60

Query: 61 TLIISAPFIGGQISSFVTLVLSRIQSSL 88
          TL+++ PF+G QIS+F  L+ SRI    
Sbjct: 61 TLLLTLPFMGAQISAFTLLIYSRIAGGF 88


>gnl|CDD|139219 PRK12781, fliQ, flagellar biosynthesis protein FliQ; Reviewed.
          Length = 88

 Score = 88.7 bits (220), Expect = 3e-19
 Identities = 48/86 (55%), Positives = 64/86 (74%)

Query: 1  MNEADVLEIARAAMWTILSSSAPVLFSAMFLGILIAFLQALTQIQEVTLTFVPKIIAVFI 60
          MNE D LE+ RAA+WTI+ +S P + +AM +GI IA LQALTQIQEVTLTFVPKI+ + I
Sbjct: 1  MNERDALELVRAAIWTIIVASGPAVGAAMLVGIAIALLQALTQIQEVTLTFVPKIVVILI 60

Query: 61 TLIISAPFIGGQISSFVTLVLSRIQS 86
           + ++  F+G QI +F  +V  RI+S
Sbjct: 61 VMAVTGSFVGAQIYAFTEMVYGRIES 86


>gnl|CDD|130469 TIGR01402, fliQ, flagellar biosynthetic protein FliQ.  This model
          describes FliQ, a protein involved in biosynthesis of
          bacterial flagella. A related family of proteins,
          excluded from this model, participates in bacterial
          type III protein secretion systems.
          Length = 88

 Score = 71.5 bits (176), Expect = 5e-14
 Identities = 36/85 (42%), Positives = 54/85 (63%)

Query: 1  MNEADVLEIARAAMWTILSSSAPVLFSAMFLGILIAFLQALTQIQEVTLTFVPKIIAVFI 60
          M E  VL++ R A+W  L  SAPVL  A+ +G++I+  QA TQIQE TL+F+PKIIA+ +
Sbjct: 1  MTEETVLDLGREAIWLTLLLSAPVLLVALVVGLVISIFQAATQIQEQTLSFIPKIIAILL 60

Query: 61 TLIISAPFIGGQISSFVTLVLSRIQ 85
           L +  P++  ++  F   +  RI 
Sbjct: 61 ALALLGPWMLTKLLDFTREIFQRIP 85


>gnl|CDD|180210 PRK05700, fliQ, flagellar biosynthesis protein FliQ; Validated.
          Length = 89

 Score = 67.6 bits (166), Expect = 6e-13
 Identities = 32/84 (38%), Positives = 53/84 (63%)

Query: 1  MNEADVLEIARAAMWTILSSSAPVLFSAMFLGILIAFLQALTQIQEVTLTFVPKIIAVFI 60
          M    V+++ R AM   L  +AP+L  A+ +G++++  QA TQI E TL+F+PKI+AV +
Sbjct: 1  MTPESVMDLFREAMKVALMLAAPLLLVALVVGLVVSIFQAATQINEQTLSFIPKILAVLL 60

Query: 61 TLIISAPFIGGQISSFVTLVLSRI 84
          TLII+ P++   +  +   + S I
Sbjct: 61 TLIIAGPWMLNTLLDYTRTLFSNI 84


>gnl|CDD|185248 PRK15350, PRK15350, type III secretion system protein SsaS;
          Provisional.
          Length = 88

 Score = 53.5 bits (128), Expect = 1e-08
 Identities = 29/84 (34%), Positives = 58/84 (69%)

Query: 1  MNEADVLEIARAAMWTILSSSAPVLFSAMFLGILIAFLQALTQIQEVTLTFVPKIIAVFI 60
          MN++++ +     +W +L +S PV+  A  +G++++ +QALTQIQ+ TL F+ K++A+ I
Sbjct: 1  MNDSELTQFVTQLLWIVLFTSMPVVLVASVVGVIVSLVQALTQIQDQTLQFMIKLLAIAI 60

Query: 61 TLIISAPFIGGQISSFVTLVLSRI 84
          TL++S P++ G + ++   ++ RI
Sbjct: 61 TLMVSYPWLSGILLNYTRQIMLRI 84


>gnl|CDD|130470 TIGR01403, fliQ_rel_III, type III secretion protein, HrpO family.
           This model represents one of several families of
          proteins related to bacterial flagellar biosynthesis
          proteins and involved in bacterial type III protein
          secretion systems. This family is homologous to, but
          distinguished from, flagellar biosynthetic protein
          FliQ. This model may not identify all type III
          secretion system FliQ homologs.
          Length = 81

 Score = 53.1 bits (128), Expect = 1e-08
 Identities = 31/80 (38%), Positives = 54/80 (67%)

Query: 5  DVLEIARAAMWTILSSSAPVLFSAMFLGILIAFLQALTQIQEVTLTFVPKIIAVFITLII 64
          D++++   A+  +L  S P +  A  +G+L++ LQALTQ+Q+ TL F  K+IAVFITL++
Sbjct: 1  DIVQLTNQALLLVLILSLPPVLVAAIVGLLVSLLQALTQLQDQTLPFAIKLIAVFITLML 60

Query: 65 SAPFIGGQISSFVTLVLSRI 84
          +A ++G +I +F   + + I
Sbjct: 61 TAGWLGAEILNFANQIFTMI 80


>gnl|CDD|185233 PRK15333, PRK15333, type III secretion system protein SpaQ;
          Provisional.
          Length = 86

 Score = 32.7 bits (74), Expect = 0.022
 Identities = 20/72 (27%), Positives = 38/72 (52%)

Query: 5  DVLEIARAAMWTILSSSAPVLFSAMFLGILIAFLQALTQIQEVTLTFVPKIIAVFITLII 64
          D++     A++ +L  S      A  +G+L+   Q +TQ+QE TL F  K++ V + L +
Sbjct: 3  DLVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQLQEQTLPFGIKLLGVCLCLFL 62

Query: 65 SAPFIGGQISSF 76
           + + G  + S+
Sbjct: 63 LSGWYGEVLLSY 74


>gnl|CDD|178775 PLN03237, PLN03237, DNA topoisomerase 2; Provisional.
          Length = 1465

 Score = 31.0 bits (70), Expect = 0.069
 Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 4/48 (8%)

Query: 32  GILIAFLQALTQIQEVTLTFVPKIIAVFITLIISAPFIGGQISSFVTL 79
           G+LI F+ +       +L  VP  +  FIT I+ A   G ++ SF ++
Sbjct: 545 GLLINFIHSFWP----SLLKVPSFLVEFITPIVKATRRGKKVLSFYSM 588


>gnl|CDD|162131 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family protein.
            
          Length = 1394

 Score = 27.8 bits (62), Expect = 0.61
 Identities = 15/63 (23%), Positives = 29/63 (46%), Gaps = 6/63 (9%)

Query: 17   ILSSSAPVLFSAMFLGILIAFLQALTQIQEVTLTFVPKIIAVFITLIISAPFIGGQISSF 76
            + S     +F+A+F+G    F +  T +Q +      ++ AVF+  ++  P I   +  F
Sbjct: 1098 LYSKFFLTIFAALFIGF--TFFKVGTSLQGLQ----NQMFAVFMATVLFNPLIQQYLPPF 1151

Query: 77   VTL 79
            V  
Sbjct: 1152 VAQ 1154


>gnl|CDD|180212 PRK05702, flhB, flagellar biosynthesis protein FlhB; Reviewed.
          Length = 359

 Score = 26.3 bits (59), Expect = 1.9
 Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 7/57 (12%)

Query: 1   MNEADVLEIARAAMWTILSSSAPVLFSAMFLGILIAFLQALTQIQEVTLTFVPKIIA 57
            +  DVL +    +   L +  P+L   +   +L   LQ         L F PK + 
Sbjct: 73  FDPNDVLSLFLLLLLEALLALLPILLLLVLAALLAPVLQ-------GGLLFSPKALK 122


>gnl|CDD|167418 PRK02726, PRK02726, molybdopterin-guanine dinucleotide
          biosynthesis protein A; Provisional.
          Length = 200

 Score = 25.0 bits (55), Expect = 4.7
 Identities = 8/14 (57%), Positives = 10/14 (71%)

Query: 32 GILIAFLQALTQIQ 45
          G L+AF Q L QI+
Sbjct: 79 GPLVAFAQGLPQIK 92


>gnl|CDD|180519 PRK06298, PRK06298, type III secretion system protein; Validated.
          Length = 356

 Score = 24.8 bits (54), Expect = 4.8
 Identities = 10/28 (35%), Positives = 19/28 (67%)

Query: 11  RAAMWTILSSSAPVLFSAMFLGILIAFL 38
           +  +  IL++S P+L +  F+G+L+ FL
Sbjct: 77  KNCLILILTASLPLLGAVAFVGVLVGFL 104


>gnl|CDD|161839 TIGR00361, ComEC_Rec2, DNA internalization-related competence
           protein ComEC/Rec2.  The role for this protein in
           species that are not naturally transformable is unknown.
          Length = 662

 Score = 24.9 bits (54), Expect = 4.9
 Identities = 15/47 (31%), Positives = 22/47 (46%)

Query: 34  LIAFLQALTQIQEVTLTFVPKIIAVFITLIISAPFIGGQISSFVTLV 80
           LI+F   +  +   T   VP I+A  + L +S  F   Q S F  L+
Sbjct: 321 LISFPANMLAVPFYTFCIVPLILAAVLLLSLSGSFGRLQGSWFDLLI 367


>gnl|CDD|178105 PLN02487, PLN02487, zeta-carotene desaturase.
          Length = 569

 Score = 24.8 bits (54), Expect = 5.9
 Identities = 9/13 (69%), Positives = 11/13 (84%)

Query: 65  SAPFIGGQISSFV 77
           S PFIGG++ SFV
Sbjct: 106 SRPFIGGKVGSFV 118


>gnl|CDD|180034 PRK05352, PRK05352, Na(+)-translocating NADH-quinone reductase
           subunit A; Provisional.
          Length = 448

 Score = 24.4 bits (54), Expect = 6.6
 Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 11/42 (26%)

Query: 52  VPKIIAVFITLIISAPF-------IGGQISSFVT--LVLSRI 84
            P+  A+F+T + + P        I  Q  +F     VLSR+
Sbjct: 146 TPR--AIFVTAMDTNPLAADPEVIIAEQEEAFQAGLTVLSRL 185


  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
   0.330    0.139    0.373 

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: 1,355,116
Number of extensions: 74919
Number of successful extensions: 436
Number of sequences better than 10.0: 1
Number of HSP's gapped: 430
Number of HSP's successfully gapped: 100
Length of query: 88
Length of database: 5,994,473
Length adjustment: 57
Effective length of query: 31
Effective length of database: 4,762,817
Effective search space: 147647327
Effective search space used: 147647327
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 50 (23.0 bits)