RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780221|ref|YP_003064634.1| hypothetical protein
CLIBASIA_00530 [Candidatus Liberibacter asiaticus str. psy62]
         (97 letters)



>gnl|CDD|37681 KOG2470, KOG2470, KOG2470, Similar to IMP-GMP specific
           5'-nucleotidase [Nucleotide transport and metabolism].
          Length = 510

 Score = 27.6 bits (61), Expect = 0.85
 Identities = 12/50 (24%), Positives = 25/50 (50%)

Query: 3   FKTKQLILAVLVTLLGSCADDRITELNTLLAEYKEENLKIRELQKELYPA 52
           ++  Q  L +L  LL      R     ++L E+ +E  ++R+  K+++ A
Sbjct: 390 YRFSQTWLQILTGLLERMQAQRSEASQSVLDEWMKERQELRDTTKQMFNA 439


>gnl|CDD|143452 cd07134, ALDH_AlkH-like, Pseudomonas putida Aldehyde
          dehydrogenase AlkH-like.  Aldehyde dehydrogenase AlkH
          (locus name P12693, EC=1.2.1.3) of the alkBFGHJKL
          operon that allows Pseudomonas putida to metabolize
          alkanes and the aldehyde dehydrogenase AldX of Bacillus
          subtilis (locus P46329, EC=1.2.1.3), and similar
          sequences, are present in this CD.
          Length = 433

 Score = 26.4 bits (59), Expect = 1.9
 Identities = 14/62 (22%), Positives = 22/62 (35%), Gaps = 13/62 (20%)

Query: 16 LLGSCADDRITELNTLLAEYKEENLKIRE-----LQK--------ELYPAISTLAHRMDK 62
          L  S A +RI +L  L         +I        +K        E+ P +S + H +  
Sbjct: 14 LRASTAAERIAKLKRLKKAILARREEIIAALAADFRKPAAEVDLTEILPVLSEINHAIKH 73

Query: 63 LH 64
          L 
Sbjct: 74 LK 75


>gnl|CDD|146000 pfam03154, Atrophin-1, Atrophin-1 family.  Atrophin-1 is the
           protein product of the dentatorubral-pallidoluysian
           atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive
           neurodegenerative disorder. It is caused by the
           expansion of a CAG repeat in the DRPLA gene on
           chromosome 12p. This results in an extended
           polyglutamine region in atrophin-1, that is thought to
           confer toxicity to the protein, possibly through
           altering its interactions with other proteins. The
           expansion of a CAG repeat is also the underlying defect
           in six other neurodegenerative disorders, including
           Huntington's disease. One interaction of expanded
           polyglutamine repeats that is thought to be pathogenic
           is that with the short glutamine repeat in the
           transcriptional coactivator CREB binding protein, CBP.
           This interaction draws CBP away from its usual nuclear
           location to the expanded polyglutamine repeat protein
           aggregates that are characteristic of the polyglutamine
           neurodegenerative disorders. This interferes with
           CBP-mediated transcription and causes cytotoxicity.
          Length = 979

 Score = 26.2 bits (57), Expect = 2.0
 Identities = 13/44 (29%), Positives = 20/44 (45%)

Query: 21  ADDRITELNTLLAEYKEENLKIRELQKELYPAISTLAHRMDKLH 64
           AD  I E      E +E  ++ REL++ + P        +D LH
Sbjct: 711 ADPTIRERELREREMREREIRERELRERMKPGFEVKPPELDTLH 754


>gnl|CDD|37455 KOG2244, KOG2244, KOG2244, Highly conserved protein containing a
           thioredoxin domain [General function prediction only].
          Length = 786

 Score = 25.0 bits (54), Expect = 4.7
 Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 3/49 (6%)

Query: 15  TLLGSCADDRITELNTLLAEYKEENLKIRELQKELYPAISTLAHRMDKL 63
           T+L    D   ++ +TLL   +     I EL K L P  +T  +R +KL
Sbjct: 210 TVLKKIKDAWNSKRDTLL---ETGTYAISELSKALSPEAATGDNRAEKL 255


>gnl|CDD|36175 KOG0957, KOG0957, KOG0957, PHD finger protein [General function
           prediction only].
          Length = 707

 Score = 24.0 bits (51), Expect = 9.1
 Identities = 12/56 (21%), Positives = 18/56 (32%)

Query: 42  IRELQKELYPAISTLAHRMDKLHFESDALDPILRRMDGPVKHVERRINSKTTTLEQ 97
           I    +E    I  L     +L  E  A     +      KH+  R ++    L Q
Sbjct: 443 ISSFMQERDSQIIPLEEEQLRLSREYLAETEANQEKKSSQKHLVERFSANEELLGQ 498


  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
   0.320    0.135    0.367 

Gapped
Lambda     K      H
   0.267   0.0833    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,065,224
Number of extensions: 46984
Number of successful extensions: 161
Number of sequences better than 10.0: 1
Number of HSP's gapped: 161
Number of HSP's successfully gapped: 21
Length of query: 97
Length of database: 6,263,737
Length adjustment: 65
Effective length of query: 32
Effective length of database: 4,859,152
Effective search space: 155492864
Effective search space used: 155492864
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (23.2 bits)