RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780932|ref|YP_003065345.1| hypothetical protein
CLIBASIA_04155 [Candidatus Liberibacter asiaticus str. psy62]
         (236 letters)



>gnl|CDD|151187 pfam10691, DUF2497, Protein of unknown function (DUF2497).  Members
           of this family belong to the Alphaproteobacteria. The
           function of the family is not known.
          Length = 72

 Score = 86.9 bits (216), Expect = 4e-18
 Identities = 39/72 (54%), Positives = 56/72 (77%), Gaps = 2/72 (2%)

Query: 163 EEALVSSDVGDQVASSFDQLVKALRES--ESRSLDQLSLDVLRPMLREWLDDNLPGIVER 220
           ++AL+S +  + VA++F +L +A+R S    R+L+ L  ++LRPML+EWLD+NLP +VER
Sbjct: 1   DDALISEETAEAVAAAFGKLARAIRISRSGGRTLEDLVREMLRPMLKEWLDNNLPALVER 60

Query: 221 LVREEIERIARG 232
           LVREEIERIAR 
Sbjct: 61  LVREEIERIARK 72


>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
          Length = 602

 Score = 31.7 bits (73), Expect = 0.15
 Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 12/68 (17%)

Query: 7   VSEPSMEEIVNSIRRILENNDQEFSTSNNVQTQVPARDEGV----IEK-------EDFVQ 55
           +      EI   IR + +       TS+ VQ +V AR +G+    ++        E F  
Sbjct: 83  IKLAKGGEIDALIREVAKELGATLVTSDRVQAEV-ARAKGIDVIYLKPEREPLEIEKFFD 141

Query: 56  EDKMSNHL 63
           E+ MS HL
Sbjct: 142 EETMSVHL 149


>gnl|CDD|171521 PRK12467, PRK12467, peptide synthase; Provisional.
          Length = 3956

 Score = 30.5 bits (69), Expect = 0.39
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 4/65 (6%)

Query: 173  DQVASSFDQLVKALRESESRSLDQLSL---DVLRPMLREWLDDNLPGIVERLVREEIER- 228
            +++A SFD+L++A+  + +  L +L        R +L  W         ERLV + IE  
Sbjct: 3045 ERLAESFDRLLQAMLNNPAARLGELPTLAAHERRQVLHAWNATAAAYPSERLVHQLIEAQ 3104

Query: 229  IARGP 233
            +AR P
Sbjct: 3105 VARTP 3109


>gnl|CDD|182441 PRK10416, PRK10416, signal recognition particle-docking protein
           FtsY; Provisional.
          Length = 318

 Score = 29.3 bits (67), Expect = 0.87
 Identities = 13/47 (27%), Positives = 25/47 (53%), Gaps = 6/47 (12%)

Query: 163 EEALVSSDVGDQVASSFDQLVKALRESESRSLDQL-SLDVLRPMLRE 208
           EE L+ +DVG +     +++++ LR  E      L   + L+ +L+E
Sbjct: 53  EELLIEADVGVETT---EEIIEELR--ERVKRKNLKDPEELKELLKE 94


>gnl|CDD|172366 PRK13839, PRK13839, conjugal transfer protein TrbG; Provisional.
          Length = 277

 Score = 27.5 bits (61), Expect = 3.0
 Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 4/42 (9%)

Query: 69  SHLKKY----GVEYPKKETMSLSDVAARVRAEARGDARIIAD 106
           SH  +Y    G EYP+  +  L+D+ AR+ A     A + A+
Sbjct: 146 SHPTQYMARVGFEYPEDVSTKLADINARLEASTIPGAGVPAE 187


>gnl|CDD|131834 TIGR02787, codY_Gpos, GTP-sensing transcriptional pleiotropic
           repressor CodY.  This model represents the full length
           of CodY, a pleiotropic repressor in Bacillus subtilis
           and other Firmicutes (low-GC Gram-positive bacteria)
           that responds to intracellular levels of GTP and
           branched chain amino acids. The C-terminal
           helix-turn-helix DNA-binding region is modeled by
           pfam08222 in Pfam.
          Length = 251

 Score = 26.6 bits (59), Expect = 5.5
 Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 6/40 (15%)

Query: 161 GEEEALVSSDVGDQVASSFDQLVKALR--ES----ESRSL 194
           G E  LV+S + D+V  +   +V ALR  ES    ESRSL
Sbjct: 194 GNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSL 233


>gnl|CDD|183122 PRK11410, PRK11410, hypothetical protein; Provisional.
          Length = 561

 Score = 26.6 bits (59), Expect = 5.7
 Identities = 11/26 (42%), Positives = 17/26 (65%), Gaps = 1/26 (3%)

Query: 190 ESRSLDQLSLDVLR-PMLREWLDDNL 214
           +S SL QL  D+L  P+LR+ L ++ 
Sbjct: 61  DSDSLSQLPKDLLTVPLLRDVLTEDF 86


>gnl|CDD|117067 pfam08490, DUF1744, Domain of unknown function (DUF1744).  This
           domain is found on the epsilon catalytic subunit of DNA
           polymerase. It is found C terminal to pfam03104 and
           pfam00136.
          Length = 396

 Score = 26.5 bits (59), Expect = 6.3
 Identities = 23/79 (29%), Positives = 38/79 (48%), Gaps = 15/79 (18%)

Query: 154 DLVDKCKGEEEALVSSDVGDQVASSFDQLVKALRESESRSLDQLS---LDVLRPMLREWL 210
            L+++ +G + A +S D+      + D    A+ E+     D  S   L VL+ M++EW 
Sbjct: 222 ALINEAEGADLAGISFDM------APDASGGAVNENSGYDEDAFSSAALRVLKSMVKEWW 275

Query: 211 DDNLPG------IVERLVR 223
           DD L G      +V+ L R
Sbjct: 276 DDALSGNITADSLVQHLYR 294


>gnl|CDD|163148 TIGR03135, malonate_mdcG, holo-ACP synthase, malonate
           decarboxylase-specific.  Malonate decarboxylase, like
           citrate lyase, has a unique acyl carrier protein subunit
           with a prosthetic group derived from, and distinct from,
           coenzyme A. Members of this protein family are the
           phosphoribosyl-dephospho-CoA transferase specific to the
           malonate decarboxylase system. This enzyme can also be
           designated holo-ACP synthase (2.7.7.61). The
           corresponding component of the citrate lyase system,
           CitX, shows little or no sequence similarity to this
           family.
          Length = 202

 Score = 26.5 bits (59), Expect = 7.0
 Identities = 11/39 (28%), Positives = 16/39 (41%)

Query: 194 LDQLSLDVLRPMLREWLDDNLPGIVERLVREEIERIARG 232
           L  L L   +P    WL    P +V R    +  ++A G
Sbjct: 14  LASLPLPAAQPAWAAWLAAGRPLVVRRAAPADAGQVALG 52


>gnl|CDD|172020 PRK13384, PRK13384, delta-aminolevulinic acid dehydratase;
           Provisional.
          Length = 322

 Score = 25.9 bits (57), Expect = 9.3
 Identities = 23/64 (35%), Positives = 34/64 (53%), Gaps = 14/64 (21%)

Query: 186 LRESES-RSL---DQLSL-DVLRPM-LREWLDD-----NLPGIV---ERLVREEIERIAR 231
           LR SE+ R L    ++SL D++ P+ + E + D      LPGI    E  + +EIER+  
Sbjct: 13  LRRSEAMRDLVRETEVSLSDLIYPIFIEEHITDAVPISTLPGISRLPESALADEIERLYA 72

Query: 232 GPIR 235
             IR
Sbjct: 73  LGIR 76


>gnl|CDD|184034 PRK13405, bchH, magnesium chelatase subunit H; Provisional.
          Length = 1209

 Score = 25.8 bits (57), Expect = 9.3
 Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 1/32 (3%)

Query: 14  EIVNSIR-RILENNDQEFSTSNNVQTQVPARD 44
           E V+++R  IL  N   + T  NV  +VPA D
Sbjct: 485 ESVDALREAILGGNAARYGTPANVHARVPADD 516


>gnl|CDD|181005 PRK07503, PRK07503, methionine gamma-lyase; Provisional.
          Length = 403

 Score = 25.9 bits (57), Expect = 9.8
 Identities = 9/30 (30%), Positives = 13/30 (43%)

Query: 77  EYPKKETMSLSDVAARVRAEARGDARIIAD 106
           E P    M L D+AA         A+++ D
Sbjct: 157 ETPANPNMRLVDIAAVAEIAHGAGAKVVVD 186


>gnl|CDD|150567 pfam09909, DUF2138, Uncharacterized protein conserved in bacteria
           (DUF2138).  This domain, found in various hypothetical
           prokaryotic proteins, has no known function.
          Length = 552

 Score = 25.9 bits (57), Expect = 10.0
 Identities = 12/22 (54%), Positives = 16/22 (72%), Gaps = 1/22 (4%)

Query: 190 ESRSLDQLSLDVLR-PMLREWL 210
           +S SL QL  D+LR P+LR+ L
Sbjct: 52  DSDSLSQLPKDLLRVPLLRDVL 73


  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
   0.310    0.128    0.344 

Gapped
Lambda     K      H
   0.267   0.0734    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,844,248
Number of extensions: 244508
Number of successful extensions: 520
Number of sequences better than 10.0: 1
Number of HSP's gapped: 519
Number of HSP's successfully gapped: 30
Length of query: 236
Length of database: 5,994,473
Length adjustment: 90
Effective length of query: 146
Effective length of database: 4,049,753
Effective search space: 591263938
Effective search space used: 591263938
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 56 (25.3 bits)