RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= 537021.9.peg.493_1
         (64 letters)



>gnl|CDD|133266 cd01863, Rab18, Rab18 subfamily.  Mammalian Rab18 is implicated in
           endocytic transport and is expressed most highly in
           polarized epithelial cells. However, trypanosomal Rab,
           TbRAB18, is upregulated in the BSF (Blood Stream Form)
           stage and localized predominantly to elements of the
           Golgi complex.  In human and mouse cells, Rab18 has been
           identified in lipid droplets, organelles that store
           neutral lipids. GTPase activating proteins (GAPs)
           interact with GTP-bound Rab and accelerate the
           hydrolysis of GTP to GDP. Guanine nucleotide exchange
           factors (GEFs) interact with GDP-bound Rabs to promote
           the formation of the GTP-bound state.  Rabs are further
           regulated by guanine nucleotide dissociation inhibitors
           (GDIs), which facilitate Rab recycling by masking
           C-terminal lipid binding and promoting cytosolic
           localization. Most Rab GTPases contain a lipid
           modification site at the C-terminus, with sequence
           motifs CC, CXC, or CCX. Lipid binding is essential for
           membrane attachment, a key feature of most Rab proteins.
            Due to the presence of truncated sequences in this CD,
           the lipid modification site is not available for
           annotation.
          Length = 161

 Score = 24.5 bits (54), Expect = 5.6
 Identities = 6/18 (33%), Positives = 10/18 (55%)

Query: 41  IWIEEIKYYCKEANIVSM 58
            W+ E++ Y    +IV M
Sbjct: 93  TWLNELETYSTNNDIVKM 110


  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
   0.332    0.142    0.478 

Gapped
Lambda     K      H
   0.267   0.0595    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 873,650
Number of extensions: 36103
Number of successful extensions: 174
Number of sequences better than 10.0: 1
Number of HSP's gapped: 174
Number of HSP's successfully gapped: 6
Length of query: 64
Length of database: 6,263,737
Length adjustment: 36
Effective length of query: 28
Effective length of database: 5,485,813
Effective search space: 153602764
Effective search space used: 153602764
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 51 (23.7 bits)