RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy17175
         (285 letters)



>gnl|CDD|223615 COG0541, Ffh, Signal recognition particle GTPase [Intracellular
           trafficking and secretion].
          Length = 451

 Score = 30.6 bits (70), Expect = 0.99
 Identities = 17/53 (32%), Positives = 19/53 (35%), Gaps = 23/53 (43%)

Query: 56  NQNKRFQE------VILTRMRIGHTRLTHNHLFTKTDPPLCQCGAALSVRHIL 102
           N  K F E      VILT++  G  R                 GAALS R I 
Sbjct: 230 NTAKAFNEALGITGVILTKLD-GDAR----------------GGAALSARAIT 265



 Score = 30.6 bits (70), Expect = 0.99
 Identities = 17/53 (32%), Positives = 19/53 (35%), Gaps = 23/53 (43%)

Query: 198 NQNKRFQE------VILTRMRIGHTRLTHNHLFTKIDPPLCQCGAALSVRHIL 244
           N  K F E      VILT++  G  R                 GAALS R I 
Sbjct: 230 NTAKAFNEALGITGVILTKLD-GDAR----------------GGAALSARAIT 265


>gnl|CDD|240411 PTZ00419, PTZ00419, valyl-tRNA synthetase-like protein;
           Provisional.
          Length = 995

 Score = 30.4 bits (69), Expect = 1.2
 Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 1/42 (2%)

Query: 37  LCQYYLKVIKPTIEYWSTSNQNKRFQEVILTRMRIGHTRLTH 78
           LC  YL++IKP +   S   + +  Q+V+ T + IG  RL H
Sbjct: 749 LCDVYLELIKPRLSKQSDGERKQHAQDVLHTVLDIG-LRLLH 789


>gnl|CDD|234493 TIGR04189, surface_SprA, cell surface protein SprA.  SprA is a cell
            surface protein widely distributed in the Bacteroidetes
            lineage. In Flavobacterium johnsoniae, a species that
            shows gliding motility, mutation disrupts gliding.
          Length = 2315

 Score = 28.9 bits (65), Expect = 4.6
 Identities = 15/74 (20%), Positives = 23/74 (31%), Gaps = 8/74 (10%)

Query: 135  GVESLFLLNAVLNSWIYKLCTTEDLKPFISFLITSE----WQNQWNHIPNTNKLKVIKPT 190
               S+F    V       L    +LK   S              +  + + NK   I P+
Sbjct: 2216 NFRSVFKGTGVRKRLKNDL----NLKLDFSLRDMLTLIRKLDADFPQVTSGNKRWSINPS 2271

Query: 191  IEYWSTSNQNKRFQ 204
             +Y  + N   RF 
Sbjct: 2272 ADYDLSKNLTLRFY 2285


>gnl|CDD|143344 cd07839, STKc_CDK5, Catalytic domain of the Serine/Threonine
           Kinase, Cyclin-Dependent protein Kinase 5.
           Serine/Threonine Kinases (STKs), Cyclin-Dependent
           protein Kinase 5 (CDK5) subfamily, catalytic (c) domain.
           STKs catalyze the transfer of the gamma-phosphoryl group
           from ATP to serine/threonine residues on protein
           substrates. The CDK5 subfamily is part of a larger
           superfamily that includes the catalytic domains of other
           protein STKs, protein tyrosine kinases, RIO kinases,
           aminoglycoside phosphotransferase, choline kinase, and
           phosphoinositide 3-kinase. CDKs belong to a large family
           of STKs that are regulated by their cognate cyclins.
           Together, they are involved in the control of cell-cycle
           progression, transcription, and neuronal function. CDK5
           is unusual in that it is regulated by non-cyclin
           proteins, p35 and p39. It is highly expressed in the
           nervous system and is critical in normal neural
           development and function. It plays a role in neuronal
           migration and differentiation, and is also important in
           synaptic plasticity and learning. CDK5 also participates
           in protecting against cell death and promoting
           angiogenesis. Impaired CDK5 activity is implicated in
           Alzheimer's disease, amyotrophic lateral sclerosis,
           Parkinson's disease, Huntington's disease and acute
           neuronal injury.
          Length = 284

 Score = 27.4 bits (61), Expect = 9.1
 Identities = 9/28 (32%), Positives = 15/28 (53%)

Query: 103 SCHTKIDPPLCQCGAALSVRHILFCHQH 130
           SC+  IDP + +      ++ + FCH H
Sbjct: 91  SCNGDIDPEIVKSFMFQLLKGLAFCHSH 118


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.324    0.137    0.444 

Gapped
Lambda     K      H
   0.267   0.0701    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,037,861
Number of extensions: 1268611
Number of successful extensions: 1082
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1081
Number of HSP's successfully gapped: 12
Length of query: 285
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 189
Effective length of database: 6,679,618
Effective search space: 1262447802
Effective search space used: 1262447802
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: 58 (26.2 bits)