RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8817
         (93 letters)



>gnl|CDD|204985 pfam12624, Chorein_N, N-terminal region of Chorein, a TM
          vesicle-mediated sorter.  Although mutations in the
          full-length vacuolar protein sorting 13A (VPS13A)
          protein in vertebrates lead to the disease of
          chorea-acanthocytosis, the exact function of any of the
          regions within the protein is not yet known. This
          region is the proposed leucine zipper at the
          N-terminus. The full-length protein is a transmembrane
          protein with a presumed role in vesicle-mediated
          sorting and intracellular protein transport.
          Length = 117

 Score = 30.2 bits (69), Expect = 0.065
 Identities = 17/43 (39%), Positives = 30/43 (69%), Gaps = 7/43 (16%)

Query: 19 LLQRYLGQFLEEKLTLDQLSVDLYNGTGSVSDVCL-DVQLEEE 60
          LL RYLG+++ E L  +QLSV +++G     DV L +++L+++
Sbjct: 8  LLNRYLGEYV-ENLDKEQLSVSIWSG-----DVELENLRLKKD 44


>gnl|CDD|172532 PRK14038, PRK14038, ADP-dependent glucokinase; Provisional.
          Length = 453

 Score = 26.3 bits (58), Expect = 2.5
 Identities = 8/21 (38%), Positives = 15/21 (71%)

Query: 69 ISWTVSRGEAAEWMLKSPSLK 89
          I W++ RG+AAE  ++S  ++
Sbjct: 76 ILWSIRRGKAAELFVESCEVR 96


>gnl|CDD|236990 PRK11814, PRK11814, cysteine desulfurase activator complex subunit
           SufB; Provisional.
          Length = 486

 Score = 26.4 bits (59), Expect = 2.6
 Identities = 13/22 (59%), Positives = 13/22 (59%), Gaps = 3/22 (13%)

Query: 67  SKISWT-VSRGEAAEWMLKSPS 87
           SKISWT V  G A  W  K PS
Sbjct: 303 SKISWTQVETGSAITW--KYPS 322


>gnl|CDD|218437 pfam05107, DUF694, Family of unknown function (DUF694).  Family
          of hypothetical bacterial proteins.
          Length = 278

 Score = 25.3 bits (56), Expect = 5.3
 Identities = 7/11 (63%), Positives = 8/11 (72%)

Query: 43 NGTGSVSDVCL 53
           GTG V+DV L
Sbjct: 34 TGTGLVTDVRL 44


>gnl|CDD|214359 CHL00085, ycf24, putative ABC transporter.
          Length = 485

 Score = 25.0 bits (55), Expect = 6.7
 Identities = 13/24 (54%), Positives = 14/24 (58%), Gaps = 3/24 (12%)

Query: 65  SSSKISWT-VSRGEAAEWMLKSPS 87
            +SKISWT V  G A  W  K PS
Sbjct: 300 KNSKISWTQVETGSAITW--KYPS 321


>gnl|CDD|225191 COG2309, AmpS, Leucyl aminopeptidase (aminopeptidase T) [Amino acid
           transport and metabolism].
          Length = 385

 Score = 25.0 bits (55), Expect = 6.8
 Identities = 11/20 (55%), Positives = 15/20 (75%)

Query: 62  MSLSSSKISWTVSRGEAAEW 81
           +S+SS+K+SWTV R  A  W
Sbjct: 127 ISISSNKVSWTVVRYPAPSW 146


>gnl|CDD|240230 PTZ00016, PTZ00016, aquaglyceroporin; Provisional.
          Length = 294

 Score = 25.1 bits (55), Expect = 7.2
 Identities = 6/24 (25%), Positives = 11/24 (45%)

Query: 5  FPFSDSWKKRACRYLLQRYLGQFL 28
              + W  R  R  ++ Y+ +FL
Sbjct: 35 PGGQNFWAPREYRPNVREYVAEFL 58


>gnl|CDD|143367 cd07862, STKc_CDK6, Catalytic domain of the Serine/Threonine
          Kinase, Cyclin-Dependent protein Kinase 6.
          Serine/Threonine Kinases (STKs), Cyclin-dependent
          protein kinase 6 (CDK6) subfamily, catalytic (c)
          domain. STKs catalyze the transfer of the
          gamma-phosphoryl group from ATP to serine/threonine
          residues on protein substrates. The CDK6 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. CDK6 is regulated by D-type cyclins and INK4
          inhibitors. It is active towards the retinoblastoma
          (pRb) protein, implicating it to function in regulating
          the early G1 phase of the cell cycle. It is expressed
          ubiquitously and is localized in the cytoplasm. It is
          also present in the ruffling edge of spreading
          fibroblasts and may play a role in cell spreading. It
          binds to the p21 inhibitor without any effect on its
          own activity and it is overexpressed in squamous cell
          carcinomas and neuroblastomas. CDK6 has also been shown
          to inhibit cell differentiation in many cell types.
          Length = 290

 Score = 24.6 bits (53), Expect = 9.0
 Identities = 13/27 (48%), Positives = 16/27 (59%)

Query: 40 DLYNGTGSVSDVCLDVQLEEEGMSLSS 66
          DL NG   V+   + VQ  EEGM LS+
Sbjct: 22 DLKNGGRFVALKRVRVQTGEEGMPLST 48


  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
   0.317    0.131    0.401 

Gapped
Lambda     K      H
   0.267   0.0803    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,724,738
Number of extensions: 367472
Number of successful extensions: 266
Number of sequences better than 10.0: 1
Number of HSP's gapped: 266
Number of HSP's successfully gapped: 9
Length of query: 93
Length of database: 10,937,602
Length adjustment: 60
Effective length of query: 33
Effective length of database: 8,276,362
Effective search space: 273119946
Effective search space used: 273119946
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.1 bits)