RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780885|ref|YP_003065298.1| hypothetical protein
CLIBASIA_03910 [Candidatus Liberibacter asiaticus str. psy62]
         (207 letters)



>gnl|CDD|36362 KOG1147, KOG1147, KOG1147, Glutamyl-tRNA synthetase [Translation,
           ribosomal structure and biogenesis].
          Length = 712

 Score = 30.3 bits (68), Expect = 0.38
 Identities = 15/58 (25%), Positives = 28/58 (48%), Gaps = 3/58 (5%)

Query: 93  ENERRKLADKLIWLANKDDLHLQDCRAYGRKITRDR---EVDAQLVLNDNTKHSCKVI 147
           + + +K   KL WLA+ +D    D   +   IT+D+   + D +  +N NT     ++
Sbjct: 602 DGDFKKTKLKLTWLADTNDSVPVDLVDFDHLITKDKLEKDEDFKDFVNPNTVKETLML 659


>gnl|CDD|144696 pfam01196, Ribosomal_L17, Ribosomal protein L17. 
          Length = 97

 Score = 30.1 bits (69), Expect = 0.42
 Identities = 15/29 (51%), Positives = 17/29 (58%), Gaps = 3/29 (10%)

Query: 88  RIVTSEN---ERRKLADKLIWLANKDDLH 113
           RI T+     E R  A+KLI LA K DLH
Sbjct: 14  RIETTLAKAKELRPYAEKLITLAKKGDLH 42


>gnl|CDD|30552 COG0203, RplQ, Ribosomal protein L17 [Translation, ribosomal
           structure and biogenesis].
          Length = 116

 Score = 29.0 bits (65), Expect = 0.89
 Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 6/51 (11%)

Query: 88  RIVTSE---NERRKLADKLIWLANKDDLHLQDCRAYGRKITRDREVDAQLV 135
           RI T+     E R++ +KLI LA K DL     R       RD++   +L 
Sbjct: 33  RIETTLPKAKELRRVVEKLITLAKKGDLA---NRRLAFARLRDKDAVKKLF 80


>gnl|CDD|31135 COG0792, COG0792, Predicted endonuclease distantly related to
           archaeal Holliday junction resolvase [DNA replication,
           recombination, and repair].
          Length = 114

 Score = 28.3 bits (63), Expect = 1.4
 Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 11/61 (18%)

Query: 60  ERSIVFVEKVGRIEGKVVNFDSNR--GYAVRIVTSENERRKLADKLIWLANKDDLHLQDC 117
             ++VFVE         V +  N   G A   VT   +R+      +WLA + DL    C
Sbjct: 42  GDTVVFVE---------VKYRRNDLYGGAAEAVTPRKQRKLRRAARLWLARQPDLSDLPC 92

Query: 118 R 118
           R
Sbjct: 93  R 93


>gnl|CDD|173841 cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar
           to fadE6, fadE17, and fadE26.  Putative acyl-CoA
           dehydrogenases (ACAD). Mitochondrial acyl-CoA
           dehydrogenases (ACAD) catalyze the alpha, beta
           dehydrogenation of the corresponding trans-enoyl-CoA by
           FAD, which becomes reduced. The reduced form of ACAD is
           reoxidized in the oxidative half-reaction by
           electron-transferring flavoprotein (ETF), from which the
           electrons are transferred to the mitochondrial
           respiratory chain coupled with ATP synthesis. The ACD
           family includes the eukaryotic beta-oxidation, as well
           as amino acid catabolism enzymes. These enzymes share
           high sequence similarity, but differ in their substrate
           specificities. The mitochondrial ACD's are generally
           homotetramers and have an active site glutamate at a
           conserved position.
          Length = 380

 Score = 26.9 bits (60), Expect = 4.3
 Identities = 12/54 (22%), Positives = 17/54 (31%)

Query: 82  NRGYAVRIVTSENERRKLADKLIWLANKDDLHLQDCRAYGRKITRDREVDAQLV 135
           N G+ V + T   ER  +              L      GR +  D  V  +L 
Sbjct: 226 NDGWKVAMTTLNFERVSIGGSAATFFELLLARLLLLTRDGRPLIDDPLVRQRLA 279


>gnl|CDD|33853 COG4096, HsdR, Type I site-specific restriction-modification
           system, R (restriction) subunit and related helicases
           [Defense mechanisms].
          Length = 875

 Score = 26.5 bits (58), Expect = 4.8
 Identities = 20/72 (27%), Positives = 29/72 (40%), Gaps = 8/72 (11%)

Query: 119 AYGRKITRDREVDAQLVLNDNTKHSCKVIDISESGVSVSVD--------LQIEMFSKVLF 170
            Y  KIT D E    L+ N   K     I I+   ++  VD           ++ SK  F
Sbjct: 456 RYAMKITGDAEQAQALIDNFIDKEKYPRIAITVDLLTTGVDVPEVVNLVFDRKVRSKTKF 515

Query: 171 NDILGRVVRIFP 182
             ++GR  R+ P
Sbjct: 516 KQMVGRGTRLCP 527


>gnl|CDD|33884 COG4127, COG4127, Uncharacterized conserved protein [Function
           unknown].
          Length = 318

 Score = 26.5 bits (58), Expect = 5.4
 Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 10/58 (17%)

Query: 65  FVEKVGRIEGKVVNFDSNRGYAVRIVTSENERRKLADKLI-------WLAN---KDDL 112
           FV ++ + +  +    SNR Y +  VTS+ E      + I       WLA    +DD 
Sbjct: 69  FVNEIQKGDLVITYSKSNRTYLIGKVTSDYEYHPEWLEGIGHTRKVKWLAKEIPRDDF 126


  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
   0.326    0.142    0.418 

Gapped
Lambda     K      H
   0.267   0.0759    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,449,410
Number of extensions: 125758
Number of successful extensions: 325
Number of sequences better than 10.0: 1
Number of HSP's gapped: 325
Number of HSP's successfully gapped: 15
Length of query: 207
Length of database: 6,263,737
Length adjustment: 89
Effective length of query: 118
Effective length of database: 4,340,536
Effective search space: 512183248
Effective search space used: 512183248
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 (24.9 bits)