RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254781144|ref|YP_003065557.1| hypothetical protein
CLIBASIA_05240 [Candidatus Liberibacter asiaticus str. psy62]
         (76 letters)



>gnl|CDD|112515 pfam03705, CheR_N, CheR methyltransferase, all-alpha domain.
          CheR proteins are part of the chemotaxis signaling
          mechanism in bacteria. CheR methylates the chemotaxis
          receptor at specific glutamate residues. CheR is an
          S-adenosylmethionine- dependent methyltransferase.
          Length = 57

 Score = 28.6 bits (65), Expect = 0.36
 Identities = 6/46 (13%), Positives = 17/46 (36%)

Query: 23 HLLALQKEILATFGLNNPFVSTTHLYNGIARLAEAVGVQNVNEYFN 68
               ++ +    G++        +   + R   A+G+++  EY  
Sbjct: 4  DFERFRELLYKRTGIDLTDYKRALVKRRLLRRMRALGLESFAEYLR 49


>gnl|CDD|31543 COG1352, CheR, Methylase of chemotaxis methyl-accepting proteins
          [Cell motility and secretion / Signal transduction
          mechanisms].
          Length = 268

 Score = 28.7 bits (64), Expect = 0.39
 Identities = 13/56 (23%), Positives = 23/56 (41%), Gaps = 2/56 (3%)

Query: 23 HLLALQKEILATFGLNNPFVSTTHLYNGIARLAEAVGVQNVNEYFN--NPDSEQWN 76
              +   I    G++      T +Y  ++R    +G++N  EY N    DSE+  
Sbjct: 3  DFKRIAALIYQRTGIDFDNYKRTLVYRRLSRRLRKLGLKNFEEYLNLLESDSEELQ 58


>gnl|CDD|37002 KOG1791, KOG1791, KOG1791, Uncharacterized conserved protein
           [Function unknown].
          Length = 1758

 Score = 26.5 bits (58), Expect = 1.6
 Identities = 15/63 (23%), Positives = 20/63 (31%), Gaps = 4/63 (6%)

Query: 9   LGSGNREKDIMMVSHLLALQKEILATFGLNNPFVSTT----HLYNGIARLAEAVGVQNVN 64
           L S  +   I     LL+L    +   GL N     T     L   IA L     +  + 
Sbjct: 93  LSSDTKTDTIGSGLILLSLTDTKVVYRGLINMGAQLTLFILRLLKHIANLNNGQHITELV 152

Query: 65  EYF 67
            Y 
Sbjct: 153 HYV 155


>gnl|CDD|111017 pfam02075, RuvC, Crossover junction endodeoxyribonuclease RuvC. 
          Length = 148

 Score = 26.2 bits (58), Expect = 1.9
 Identities = 8/25 (32%), Positives = 12/25 (48%)

Query: 7   IGLGSGNREKDIMMVSHLLALQKEI 31
            G GS ++ +   MV  LL L  + 
Sbjct: 109 TGNGSADKRQVQHMVKRLLNLTAKP 133


>gnl|CDD|31159 COG0817, RuvC, Holliday junction resolvasome, endonuclease subunit
           [DNA replication, recombination, and repair].
          Length = 160

 Score = 25.6 bits (56), Expect = 2.9
 Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 15/59 (25%)

Query: 7   IGLGSGNREKDIMMVSHLLALQK-------EILATFGLNNPFVSTTHLYNGIARLAEAV 58
           +G G  ++E+   MV  LL L++       + LA        ++ TH +   ARLA  +
Sbjct: 109 VGNGKADKEQVQHMVKRLLGLEEPPPADAADALA--------IAITHAHRAQARLAVGL 159


>gnl|CDD|38727 KOG3518, KOG3518, KOG3518, Putative guanine nucleotide exchange
          factor [General function prediction only].
          Length = 521

 Score = 24.7 bits (53), Expect = 5.3
 Identities = 9/38 (23%), Positives = 15/38 (39%), Gaps = 2/38 (5%)

Query: 41 FVSTTHLYNG--IARLAEAVGVQNVNEYFNNPDSEQWN 76
          F+     ++   +     A G +N +E   NPD    N
Sbjct: 61 FIPARPGFSSAELQLDNPAGGDENADEGAENPDRAISN 98


>gnl|CDD|145664 pfam02628, COX15-CtaA, Cytochrome oxidase assembly protein.  This
           is a family of integral membrane proteins. CtaA is
           required for cytochrome aa3 oxidase assembly in Bacillus
           subtilis. COX15 is required for cytochrome c oxidase
           assembly in yeast.
          Length = 298

 Score = 24.5 bits (54), Expect = 6.3
 Identities = 8/22 (36%), Positives = 10/22 (45%)

Query: 34  TFGLNNPFVSTTHLYNGIARLA 55
           T GL +P+    HL      LA
Sbjct: 122 TSGLVSPYRLAAHLLLAFLLLA 143


>gnl|CDD|99989 cd03819, GT1_WavL_like, This family is most closely related to the
           GT1 family of glycosyltransferases. WavL in Vibrio
           cholerae has been shown to be involved in the
           biosynthesis of the lipopolysaccharide core..
          Length = 355

 Score = 24.1 bits (53), Expect = 8.0
 Identities = 11/37 (29%), Positives = 14/37 (37%), Gaps = 12/37 (32%)

Query: 32  LATFGLNNPFVSTTHLYNGIARLAEAVGVQNVNEYFN 68
           LA      PFV+T H            G  +VN  +N
Sbjct: 95  LAARRTRPPFVTTVH------------GFYSVNFRYN 119


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.315    0.132    0.382 

Gapped
Lambda     K      H
   0.267   0.0838    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 889,130
Number of extensions: 37016
Number of successful extensions: 81
Number of sequences better than 10.0: 1
Number of HSP's gapped: 81
Number of HSP's successfully gapped: 11
Length of query: 76
Length of database: 6,263,737
Length adjustment: 46
Effective length of query: 30
Effective length of database: 5,269,723
Effective search space: 158091690
Effective search space used: 158091690
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (23.2 bits)