RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781005|ref|YP_003065418.1| hypothetical protein
CLIBASIA_04530 [Candidatus Liberibacter asiaticus str. psy62]
         (85 letters)



>gnl|CDD|37273 KOG2062, KOG2062, KOG2062, 26S proteasome regulatory complex,
           subunit RPN2/PSMD1 [Posttranslational modification,
           protein turnover, chaperones].
          Length = 929

 Score = 28.4 bits (63), Expect = 0.48
 Identities = 14/61 (22%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 9   ASLISSTVIMSGCSETLDPE-NGIRELGARMKQERKKADQPIGGGKTGETLPKGGGRKIS 67
            +LI+  +IM   +E L P+ NG R+   ++  ++ +      G    + +   GGR ++
Sbjct: 643 GALIALAMIMIQQTEQLCPKVNGFRKQLEKVINDKHEDGMAKFGAILAQGILDAGGRNVT 702

Query: 68  L 68
           +
Sbjct: 703 I 703


>gnl|CDD|99858 cd06105, ScCit1-2_like, Saccharomyces cerevisiae (Sc) citrate
          synthases Cit1-2_like. Citrate synthases (CS) catalyzes
          the condensation of acetyl coenzyme A (AcCoA) with
          oxaloacetate (OAA) to form citrate and coenzyme A
          (CoA), the first step in the citric acid cycle (TCA or
          Krebs cycle). Some CS proteins function as
          2-methylcitrate synthase (2MCS). 2MCS catalyzes the
          condensation of propionyl-coenzyme A (PrCoA) and OAA to
          form 2-methylcitrate and CoA during propionate
          metabolism. The overall CS reaction is thought to
          proceed through three partial reactions and involves
          both closed and open conformational forms of the
          enzyme: a) the carbanion or equivalent is generated
          from AcCoA by base abstraction of a proton, b) the
          nucleophilic attack of this carbanion on OAA to
          generate citryl-CoA, and c) the hydrolysis of
          citryl-CoA to produce citrate and CoA. There are two
          types of CSs: type I CS and type II CSs.  Type I CSs
          are found in eukarya, gram-positive bacteria, archaea,
          and in some gram-negative bacteria and are homodimers
          with both subunits participating in the active site.
          Type II CSs are unique to gram-negative bacteria and
          are homohexamers of identical subunits (approximated as
          a trimer of dimers).  ScCit1 is a nuclear-encoded
          mitochondrial CS with highly specificity for AcCoA. In
          addition to its CS function, ScCit1 plays a part in the
          construction of the TCA cycle metabolon. Yeast cells
          deleted for Cit1 are hyper-susceptible to apoptosis
          induced by heat and aging stress. ScCit2 is a
          peroxisomal CS involved in the glyoxylate cycle; in
          addition to having activity with AcCoA, it may have
          activity with PrCoA. Chicken and pig heart CS, two
          Arabidopsis thaliana (Ath) CSs, CSY4 and -5, and
          Aspergillus niger (An) CS also belong to this group.
          Ath CSY4 has a mitochondrial targeting sequence;
          AthCSY5 has no identifiable targeting sequence. AnCS
          encoded by the citA gene has both an N-terminal
          mitochondrial import signal and a C-terminal
          peroxisiomal target sequence; it is not known if both
          these signals are functional in vivo. This group
          contains proteins which functions exclusively as either
          a CS or a 2MCS, as well as those with relaxed
          specificity which have dual functions as both a CS and
          a 2MCS..
          Length = 427

 Score = 26.2 bits (58), Expect = 2.2
 Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 3/37 (8%)

Query: 25 LDPENGIRELGARMKQERKKADQPIGGGKTGETLPKG 61
          LDPE GIR  G  + + +K   +  GG    E LP+G
Sbjct: 53 LDPEEGIRFRGLSIPECQKLLPKAPGG---EEPLPEG 86


>gnl|CDD|35417 KOG0196, KOG0196, KOG0196, Tyrosine kinase, EPH (ephrin) receptor
           family [Signal transduction mechanisms].
          Length = 996

 Score = 24.5 bits (53), Expect = 6.7
 Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 7/67 (10%)

Query: 26  DPENGIRELGARMKQERKKADQPIGGGKTGE----TLPKGGGRKISLDSNNL---STELR 78
           DP   +RE    +     K ++ IG G+ GE     L   G R+I++    L    TE +
Sbjct: 614 DPNQAVREFAKEIDPSCVKIEKVIGAGEFGEVCSGRLKLPGKREITVAIKTLKAGYTEKQ 673

Query: 79  SQNFLRK 85
            ++FL +
Sbjct: 674 RRDFLSE 680


>gnl|CDD|38806 KOG3600, KOG3600, KOG3600, Thyroid hormone receptor-associated
            protein complex, subunit TRAP240 [Transcription].
          Length = 2238

 Score = 23.9 bits (51), Expect = 8.9
 Identities = 8/31 (25%), Positives = 13/31 (41%)

Query: 2    DIKGLIVASLISSTVIMSGCSETLDPENGIR 32
            DI  +   S   S  I+S C   ++P+    
Sbjct: 1962 DICRMCGISAADSPSILSACLVAMEPQGSFV 1992


  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
   0.311    0.132    0.358 

Gapped
Lambda     K      H
   0.267   0.0667    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 915,253
Number of extensions: 37821
Number of successful extensions: 60
Number of sequences better than 10.0: 1
Number of HSP's gapped: 60
Number of HSP's successfully gapped: 8
Length of query: 85
Length of database: 6,263,737
Length adjustment: 54
Effective length of query: 31
Effective length of database: 5,096,851
Effective search space: 158002381
Effective search space used: 158002381
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: 51 (23.6 bits)