RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780659|ref|YP_003065072.1| hypothetical protein
CLIBASIA_02730 [Candidatus Liberibacter asiaticus str. psy62]
         (274 letters)



>gnl|CDD|161802 TIGR00282, TIGR00282, metallophosphoesterase, MG_246/BB_0505
           family.  A member of this family from Mycoplasma
           Pneumoniae has been crystallized and described as a
           novel phosphatase.
          Length = 266

 Score =  261 bits (669), Expect = 1e-70
 Identities = 107/262 (40%), Positives = 148/262 (56%), Gaps = 5/262 (1%)

Query: 1   MRLLFLGDIVGKTGRSIVYEMLPRLIRDFQLDFVIANGENSAGGFGITEKIFCEMMETGI 60
           ++ LF+GD+ GK GR IV   LP+L   +Q D VIANGEN+  G G+T KI+  + ++G+
Sbjct: 1   IKFLFIGDVYGKAGRKIVKNNLPQLKSKYQADLVIANGENTTHGKGLTLKIYEFLKQSGV 60

Query: 61  DVITTGNHVWDKREALVFSQRHCKFLRPANYPPNTPGNGSGLYCAKNGSNVLVANIMGRV 120
           + IT GNH W ++  L         +RP N+  +  G GS L    NG+ + V N+ G  
Sbjct: 61  NYITMGNHTWFQKLILDVVINQKDLVRPLNFDTSFAGKGS-LVFEFNGAKIAVTNLQGTS 119

Query: 121 F-MNPLLDDPFRTADKILATCPLKEQADVIVFDFHAETTSEKQCFAHFVDSRASLVVGTH 179
             +     +PF+   +++    LK+  D+I  DFHAETTSEK  F    D   + VVGTH
Sbjct: 120 VNLPFKTTNPFKVLKELINM--LKKDCDLIFVDFHAETTSEKNAFGMAFDGYVTAVVGTH 177

Query: 180 THIPTADAQILDGGTGYITDLGMCGDYNSSIGLDKEEPINRFITQIPRNRFVIANGPATL 239
           TH+PTAD +IL  GT YITD+GM G + S IG + E+ I  F T  P  RF ++     L
Sbjct: 178 THVPTADLRILPKGTAYITDVGMTGPFGSVIGANPEQSIKLFCTGSPE-RFEVSECGTQL 236

Query: 240 CGICAEISDVTGLAEKIAPIRI 261
            G+  E+   T  A KI  IRI
Sbjct: 237 NGVFIEVDVKTKKAVKIERIRI 258


>gnl|CDD|150300 pfam09587, PGA_cap, Bacterial capsule synthesis protein PGA_cap.
           This protein is a putative poly-gamma-glutamate capsule
           biosynthesis protein found in bacteria.
           Poly-gamma-glutamate is a natural polymer that may be
           involved in virulence and may help bacteria survive in
           high salt concentrations. It is a surface-associated
           protein.
          Length = 237

 Score = 44.9 bits (107), Expect = 2e-05
 Identities = 40/217 (18%), Positives = 63/217 (29%), Gaps = 37/217 (17%)

Query: 2   RLLFLGDIVGKTGRSIVYEMLPRLIRDF---------QLDFVIANGENSAGG-------- 44
            L F+GD++   GR +     P                 D  I N E             
Sbjct: 1   TLAFVGDVM--LGRGLDQIAPPYDFDYPFADVKPLLRAADLAIGNLETPITDSGEPYSGK 58

Query: 45  --FGITEKIFCEMMETGIDVITTG-NHVWD-KREALVFSQRHCK--FLRPANYPPNTPGN 98
             F    +    +   G DV++   NH  D   E L+ +        +  A    N    
Sbjct: 59  PAFRAPPENAEALKAAGFDVVSLANNHSLDYGEEGLLDTLDALDRAGIAHAGAGRNLEEA 118

Query: 99  GSGLYCAKNGSNVLVANIMGRVFMNPLLDDPFRTADKILATCP-----LKEQADVIVFDF 153
                   NG  +                                    K++AD+++   
Sbjct: 119 RRPAILEVNGIRIAFLAYTYGTNGWGAGPYRPGVNPLDEEKIKADIRRAKKKADIVIVSL 178

Query: 154 HA------ETTSEKQCFAHF-VDSRASLVVGTHTHIP 183
           H       E T E++  AH  +D+ A LV+G H H+ 
Sbjct: 179 HWGVEYQYEPTPEQRELAHALIDAGADLVIGHHPHVL 215


>gnl|CDD|129087 smart00854, PGA_cap, Bacterial capsule synthesis protein PGA_cap.
           This protein is a putative poly-gamma-glutamate capsule
           biosynthesis protein found in bacteria.
           Poly-gamma-glutamate is a natural polymer that may be
           involved in virulence and may help bacteria survive in
           high salt concentrations. It is a surface-associated
           protein.
          Length = 239

 Score = 44.9 bits (107), Expect = 2e-05
 Identities = 52/222 (23%), Positives = 80/222 (36%), Gaps = 45/222 (20%)

Query: 2   RLLFLGDI-----VGKTGRSIVYEMLPRLIRDFQLDFVIAN--------GENSAGGFGIT 48
            L F+GD+     V K   S  +  +  L+R    D  I N        G  ++G     
Sbjct: 1   TLSFVGDVMLGRGVYKADFSPPFAGVKPLLR--AADLAIGNLETPITGSGSPASGKKYPN 58

Query: 49  ----EKIFCEMMETGIDVITTG-NHVWDK-REALVFSQRHCK-----------FLRPANY 91
                +    +   G DV++   NH  D   E L+ +                 L  A  
Sbjct: 59  FRAPPENAAALKAAGFDVVSLANNHSLDYGEEGLLDTLAALDAAGIAHVGAGRNLAEARK 118

Query: 92  PP--NTPGNGSGLYCAKNGSNVLVANIMGRVFMNPLLDDPFRTADKILAT-CPLKEQADV 148
           P      G    L     G+N   A    R  +  L   P    +KILA     +++ADV
Sbjct: 119 PAIVEVKGIKIALLAYTYGTNNGWAASKDRPGVALL---PDLDREKILADIARARKKADV 175

Query: 149 IVFDFH------AETTSEKQCFAH-FVDSRASLVVGTHTHIP 183
           ++   H       E T E++  AH  +D+ A +V+G H H+ 
Sbjct: 176 VIVSLHWGVEYQYEPTDEQRELAHALIDAGADVVIGHHPHVL 217


>gnl|CDD|180168 PRK05621, PRK05621, F0F1 ATP synthase subunit gamma; Validated.
          Length = 284

 Score = 30.5 bits (70), Expect = 0.49
 Identities = 11/20 (55%), Positives = 14/20 (70%), Gaps = 3/20 (15%)

Query: 194 TGYI---TDLGMCGDYNSSI 210
            GYI   +D G+CG YNS+I
Sbjct: 75  VGYIVVTSDRGLCGGYNSNI 94


>gnl|CDD|180023 PRK05335, PRK05335, tRNA (uracil-5-)-methyltransferase Gid;
           Reviewed.
          Length = 436

 Score = 29.3 bits (67), Expect = 1.1
 Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 5/47 (10%)

Query: 218 INRFITQIPRNRFVIANGPATLCGICAEISDVTG---LA--EKIAPI 259
           I   +T+IP +  +IA GP T   +   I  +TG   L   +  API
Sbjct: 118 IREEVTEIPEDITIIATGPLTSDALAEAIKALTGEDYLYFFDAAAPI 164


>gnl|CDD|181944 PRK09549, mtnW, 2,3-diketo-5-methylthiopentyl-1-phosphate enolase;
           Reviewed.
          Length = 407

 Score = 28.1 bits (63), Expect = 2.7
 Identities = 12/24 (50%), Positives = 15/24 (62%), Gaps = 4/24 (16%)

Query: 21  MLPRLIRDFQLDFVIANGENSAGG 44
           ++P LIRDF  D VI    N+ GG
Sbjct: 337 LVPLLIRDFGKDVVI----NAGGG 356


>gnl|CDD|178946 PRK00249, flgH, flagellar basal body L-ring protein; Reviewed.
          Length = 222

 Score = 27.9 bits (63), Expect = 2.8
 Identities = 12/22 (54%), Positives = 15/22 (68%), Gaps = 2/22 (9%)

Query: 178 THTHIPTADAQILDGGTGYITD 199
           + T I  ADA+I  GG GYI+D
Sbjct: 186 SSTRI--ADARISYGGRGYISD 205


>gnl|CDD|132235 TIGR03191, benz_CoA_bzdO, benzoyl-CoA reductase, bzd-type, O
           subunit.  Members of this family are the O subunit of
           one of two related types of four-subunit ATP-dependent
           benzoyl-CoA reductase. This enzyme system catalyzes the
           dearomatization of benzoyl-CoA, a common intermediate in
           pathways for the degradation for a number of different
           aromatic compounds, such as phenol and toluene.
          Length = 430

 Score = 28.0 bits (62), Expect = 2.9
 Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 3/61 (4%)

Query: 16  SIVYEMLPRLIRDFQLDFVIANGENSAGGF--GITEKIFCEMMETGIDVITTGNHVWDKR 73
            I  EM+  + RD+ +D  + +      G   GI E     + + GI ++T   ++ D+R
Sbjct: 347 RIKSEMMLNIARDWNVDGCMLHLNRGCEGLSIGIMENRLA-IAKAGIPIMTFEGNMGDER 405

Query: 74  E 74
           E
Sbjct: 406 E 406


>gnl|CDD|162225 TIGR01146, ATPsyn_F1gamma, ATP synthase, F1 gamma subunit.  This
           model describes the ATP synthase gamma subunit in
           bacteria and its equivalents in organelles, namely,
           mitochondria and chloroplast. F1/F0-ATP synthase is a
           multisubunit, membrane associated enzyme found in
           bacteria and organelles of higher eukaryotes, namely,
           mitochondria and chloroplast. This enzyme is principally
           involed in the synthesis of ATP from ADP and inorganic
           phosphate by coupling the energy derived from the proton
           electrochemical gradient across the biological membrane.
           A brief description of this multisubunit enzyme complex:
           F1 and F0 represent two major clusters of subunits. The
           gamma subunit is the part of F1 cluster. Surrounding the
           gamma subunit in a cylinder-like structure are three
           alpha and three subunits in an alternating fashion. This
           is the central catalytic unit whose different
           conformations permit the binding of ADP and inorganic
           phosphate and release of ATP.
          Length = 287

 Score = 27.6 bits (62), Expect = 3.5
 Identities = 8/20 (40%), Positives = 13/20 (65%), Gaps = 3/20 (15%)

Query: 194 TGYI---TDLGMCGDYNSSI 210
            G +   +D G+CG YNS++
Sbjct: 76  VGILVITSDRGLCGGYNSNV 95


>gnl|CDD|162183 TIGR01063, gyrA, DNA gyrase, A subunit.  This model describes the
           common type II DNA topoisomerase (DNA gyrase). Two
           apparently independently arising families, one in the
           Proteobacteria and one in Gram-positive lineages, are
           both designated toposisomerase IV.
          Length = 800

 Score = 26.9 bits (60), Expect = 5.6
 Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 6/43 (13%)

Query: 7   GDIVGK---TGRSIVYEMLPRLIRDFQLDFVIANGENSAGGFG 46
           GD++GK    G S +Y+ L R+ +DF L + + +G+   G FG
Sbjct: 64  GDVMGKYHPHGDSAIYDTLVRMAQDFSLRYPLVDGQ---GNFG 103


>gnl|CDD|172371 PRK13845, PRK13845, putative glycerol-3-phosphate acyltransferase
           PlsX; Provisional.
          Length = 437

 Score = 26.7 bits (59), Expect = 5.9
 Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 5/63 (7%)

Query: 69  VWDKREALVFSQRHCKFLRPANYPPNTPGNGSGLYCAKNGSNVLVANIMGRVFMNPLLDD 128
           +W +R + V S      +  A    +  GN +G   +  GS V  A  + +  + PL+ D
Sbjct: 18  IWYRRNSAVTS-----LVDTAASSASAAGNVAGTVVSSAGSVVSTAGSIAKSTLQPLVFD 72

Query: 129 PFR 131
           P R
Sbjct: 73  PLR 75


>gnl|CDD|129243 TIGR00137, gid_trmFO, tRNA:m(5)U-54 methyltransferase.  This model
           represents an orthologous set of proteins present in
           relatively few bacteria but very tightly conserved where
           it occurs. It is closely related to gidA
           (glucose-inhibited division protein A), which appears to
           be present in all complete eubacterial genomes so far
           and in Saccharomyces cerevisiae. It was designated gid
           but is now recognized as a tRNA:m(5)U-54
           methyltransferase and is now designated trmFO.
          Length = 433

 Score = 26.8 bits (59), Expect = 6.3
 Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 6/51 (11%)

Query: 218 INRFITQIPRNRF-VIANGPATLCGICAEISDVTGLA-----EKIAPIRIG 262
           I   +T+IP     VIA GP T   +  ++ ++TG+      +  API  G
Sbjct: 116 IREEVTEIPEEGITVIATGPLTSPALSEDLKELTGMDYLYFYDAAAPIVEG 166


>gnl|CDD|181482 PRK08575, PRK08575,
          5-methyltetrahydropteroyltriglutamate--homocysteine
          methyltransferase; Provisional.
          Length = 326

 Score = 26.6 bits (59), Expect = 6.5
 Identities = 9/24 (37%), Positives = 12/24 (50%)

Query: 48 TEKIFCEMMETGIDVITTGNHVWD 71
          T++ F    + GID  T G   WD
Sbjct: 42 TKRFFELAKDVGIDYTTDGLFRWD 65


>gnl|CDD|182501 PRK10503, PRK10503, multidrug efflux system subunit MdtB;
           Provisional.
          Length = 1040

 Score = 26.6 bits (59), Expect = 7.0
 Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 12/34 (35%)

Query: 3   LLFLGDIVGKTGRSIVYEMLPRLIRDFQLDFVIA 36
           LLF+GDIVG            RL R+F +   +A
Sbjct: 458 LLFMGDIVG------------RLFREFAVTLAVA 479


>gnl|CDD|132254 TIGR03210, badI, 2-ketocyclohexanecarboxyl-CoA hydrolase.  Members
           of this protein family are 2-ketocyclohexanecarboxyl-CoA
           hydrolase, a ring-opening enzyme that acts in catabolism
           of molecules such as benzoyl-CoA and cyclohexane
           carboxylate. It converts -ketocyclohexanecarboxyl-CoA to
           pimelyl-CoA. It is not sensitive to oxygen.
          Length = 256

 Score = 26.4 bits (58), Expect = 8.3
 Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 14/79 (17%)

Query: 204 GDYNS--SIGLDKEEPINRFITQIPR------NRFVIANGPATLCGICAEISDVTGLAEK 255
           G Y+   +IGL  EE ++  I  +P+        + I  G   L  IC    D+T  +EK
Sbjct: 71  GGYDGRGTIGLPMEE-LHSAIRDVPKPVIARVQGYAIGGG-NVLVTIC----DLTIASEK 124

Query: 256 IAPIRIGPRLSETRPDFWT 274
               ++GP++    P + T
Sbjct: 125 AQFGQVGPKVGSVDPGYGT 143


>gnl|CDD|180326 PRK05954, PRK05954, precorrin-8X methylmutase; Provisional.
          Length = 203

 Score = 26.2 bits (58), Expect = 8.5
 Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 5/39 (12%)

Query: 220 RFITQIPRNRFVIANGPATLCGICAEISDVTGLAEKIAP 258
           +   Q P   +VI N P  L  +C +I      A ++ P
Sbjct: 115 KCAQQYPEAIYVIGNAPTALLALCQQIR-----AGRVKP 148


  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
   0.323    0.141    0.434 

Gapped
Lambda     K      H
   0.267   0.0628    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,574,714
Number of extensions: 291498
Number of successful extensions: 520
Number of sequences better than 10.0: 1
Number of HSP's gapped: 516
Number of HSP's successfully gapped: 21
Length of query: 274
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 182
Effective length of database: 4,006,537
Effective search space: 729189734
Effective search space used: 729189734
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (25.6 bits)