RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12263
         (65 letters)



>gnl|CDD|236062 PRK07583, PRK07583, cytosine deaminase-like protein; Validated.
          Length = 438

 Score = 25.3 bits (56), Expect = 2.1
 Identities = 8/14 (57%), Positives = 8/14 (57%), Gaps = 5/14 (35%)

Query: 11  HIWPR-----GTFM 19
           HIWPR     GTF 
Sbjct: 88  HIWPRSPNPDGTFP 101


>gnl|CDD|178195 PLN02583, PLN02583, cinnamoyl-CoA reductase.
          Length = 297

 Score = 25.1 bits (55), Expect = 2.8
 Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 6/41 (14%)

Query: 31  RTFQTNTSCCRYMKFK--LKC----LKLENEILSIFPSSPP 65
           R F+  +S  RY+ F   +      +KL   +  + PS PP
Sbjct: 231 RAFEDVSSYGRYLCFNHIVNTEEDAVKLAQMLSPLIPSPPP 271


>gnl|CDD|153340 cd07656, F-BAR_srGAP, The F-BAR (FES-CIP4 Homology and
           Bin/Amphiphysin/Rvs) domain of Slit-Robo GTPase
           Activating Proteins.  F-BAR domains are dimerization
           modules that bind and bend membranes and are found in
           proteins involved in membrane dynamics and actin
           reorganization. Slit-Robo GTPase Activating Proteins
           (srGAPs) are Rho GAPs that interact with Robo1, the
           transmembrane receptor of Slit proteins. Slit proteins
           are secreted proteins that control axon guidance and the
           migration of neurons and leukocytes. Vertebrates contain
           three isoforms of srGAPs, all of which are expressed
           during embryonic and early development in the nervous
           system but with different localization and timing.
           srGAPs contain an N-terminal F-BAR domain, a Rho GAP
           domain, and a C-terminal SH3 domain. F-BAR domains form
           banana-shaped dimers with a positively-charged concave
           surface that binds to negatively-charged lipid
           membranes. They can induce membrane deformation in the
           form of long tubules.
          Length = 241

 Score = 23.8 bits (52), Expect = 6.5
 Identities = 9/18 (50%), Positives = 11/18 (61%)

Query: 40  CRYMKFKLKCLKLENEIL 57
            +Y + KLKC K  NE L
Sbjct: 190 AKYSEAKLKCTKARNEYL 207


>gnl|CDD|165320 PHA03022, PHA03022, hypothetical protein; Provisional.
          Length = 335

 Score = 23.8 bits (51), Expect = 8.7
 Identities = 10/19 (52%), Positives = 16/19 (84%)

Query: 42 YMKFKLKCLKLENEILSIF 60
          ++KFK++CL+   +ILSIF
Sbjct: 2  FIKFKIECLRDRIKILSIF 20


  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
   0.328    0.139    0.457 

Gapped
Lambda     K      H
   0.267   0.0719    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,077,262
Number of extensions: 195742
Number of successful extensions: 170
Number of sequences better than 10.0: 1
Number of HSP's gapped: 170
Number of HSP's successfully gapped: 4
Length of query: 65
Length of database: 10,937,602
Length adjustment: 36
Effective length of query: 29
Effective length of database: 9,340,858
Effective search space: 270884882
Effective search space used: 270884882
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 53 (24.2 bits)