RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16232
         (176 letters)



>gnl|CDD|197585 smart00225, BTB, Broad-Complex, Tramtrack and Bric a brac.
          Domain in Broad-Complex, Tramtrack and Bric a brac.
          Also known as POZ (poxvirus and zinc finger) domain.
          Known to be a protein-protein interaction motif found
          at the N-termini of several C2H2-type transcription
          factors as well as Shaw-type potassium channels. Known
          structure reveals a tightly intertwined dimer formed
          via interactions between N-terminal strand and helix
          structures. However in a subset of BTB/POZ domains,
          these two secondary structures appear to be missing. Be
          aware SMART predicts BTB/POZ domains without the beta1-
          and alpha1-secondary structures.
          Length = 97

 Score = 49.2 bits (118), Expect = 2e-08
 Identities = 20/68 (29%), Positives = 39/68 (57%), Gaps = 4/68 (5%)

Query: 31 LCSLSLCPYFQKIFSETPC--KHPVIVLKDVQGWEIQAIVDFMYKGEISVGQDQITSLIK 88
          L + S  PYF+ +FS          I L DV   + +A+++F+Y G++ + ++ +  L++
Sbjct: 18 LAAHS--PYFKALFSSDFKESDKSEIYLDDVSPEDFRALLNFLYTGKLDLPEENVEELLE 75

Query: 89 AAENLQLP 96
           A+ LQ+P
Sbjct: 76 LADYLQIP 83


>gnl|CDD|216043 pfam00651, BTB, BTB/POZ domain.  The BTB (for BR-C, ttk and bab)
          or POZ (for Pox virus and Zinc finger) domain is
          present near the N-terminus of a fraction of zinc
          finger (pfam00096) proteins and in proteins that
          contain the pfam01344 motif such as Kelch and a family
          of pox virus proteins. The BTB/POZ domain mediates
          homomeric dimerisation and in some instances
          heteromeric dimerisation. The structure of the
          dimerised PLZF BTB/POZ domain has been solved and
          consists of a tightly intertwined homodimer. The
          central scaffolding of the protein is made up of a
          cluster of alpha-helices flanked by short beta-sheets
          at both the top and bottom of the molecule. POZ domains
          from several zinc finger proteins have been shown to
          mediate transcriptional repression and to interact with
          components of histone deacetylase co-repressor
          complexes including N-CoR and SMRT. The POZ or BTB
          domain is also known as BR-C/Ttk or ZiN.
          Length = 101

 Score = 48.4 bits (116), Expect = 5e-08
 Identities = 19/64 (29%), Positives = 39/64 (60%), Gaps = 3/64 (4%)

Query: 34 LSLC-PYFQKIFSETPCKHPVIVLKDVQGWEIQAIVDFMYKGEISVGQDQITSLIKAAEN 92
          L+ C PYF+ +F+        I L+DV   + +A+++F+Y G++ + ++ +  L+  A+ 
Sbjct: 29 LAACSPYFKALFTGNKEVE--ITLEDVSPEDFEALLEFIYTGKLEITEENVDDLLALADK 86

Query: 93 LQLP 96
          LQ+P
Sbjct: 87 LQIP 90


>gnl|CDD|222983 PHA03098, PHA03098, kelch-like protein; Provisional.
          Length = 534

 Score = 32.0 bits (73), Expect = 0.16
 Identities = 15/84 (17%), Positives = 35/84 (41%), Gaps = 6/84 (7%)

Query: 17 CPAAVGFSTN---IKGDLCSLSLCP-YFQKIFSETPCKHPVIVLKDVQGWEIQAIVDFMY 72
          C  ++        IK     LS    YF+K+F     ++ + +  D        ++ ++Y
Sbjct: 10 CDESIIIVNGGGIIKVHKIILSSSSEYFKKMFKNNFKENEINLNIDYDS--FNEVIKYIY 67

Query: 73 KGEISVGQDQITSLIKAAENLQLP 96
           G+I++  + +  ++  A  L + 
Sbjct: 68 TGKINITSNNVKDILSIANYLIID 91


>gnl|CDD|173239 PRK14778, PRK14778, lipoprotein signal peptidase; Provisional.
          Length = 186

 Score = 29.4 bits (66), Expect = 0.80
 Identities = 16/73 (21%), Positives = 34/73 (46%), Gaps = 12/73 (16%)

Query: 81  DQITSLIKAAENLQLPTQQLFVLSFGYIPLPAPTSQKIS-GFTKKLSEMVIYLILKI--- 136
           DQ+T  I +           F +  G++     T++ ++ G    LSE V++ +L +   
Sbjct: 12  DQLTKRIASE------IHGTFFIVPGFLRFVKATNRGVALGLFSNLSEQVLWTVLFVVVF 65

Query: 137 --IIPMLYEFNGL 147
             ++P ++ F+ L
Sbjct: 66  LSLLPYIFRFSRL 78


>gnl|CDD|227094 COG4752, COG4752, Uncharacterized protein conserved in bacteria
           [Function unknown].
          Length = 190

 Score = 27.5 bits (61), Expect = 2.8
 Identities = 8/19 (42%), Positives = 11/19 (57%)

Query: 142 YEFNGLYTVVNPEAQKIMT 160
           YE  G Y V   +AQ+I+ 
Sbjct: 41  YEIKGYYIVQPIDAQRIVI 59


>gnl|CDD|222053 pfam13337, Lon_2, Putative ATP-dependent Lon protease.  This is a
           family of proteins that are annotated as ATP-dependent
           Lon proteases.
          Length = 457

 Score = 27.2 bits (61), Expect = 4.6
 Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 6/43 (13%)

Query: 49  CKHPVIVLKDVQGW------EIQAIVDFMYKGEISVGQDQITS 85
               V+   +V G        +Q + D+M  G  S G++ I +
Sbjct: 258 GLWDVVAFDEVAGISFKDKDGVQIMKDYMESGSFSRGKETINA 300


>gnl|CDD|218402 pfam05050, Methyltransf_21, Methyltransferase FkbM domain.  This
           family has members from bacteria to human, and appears
           to be a methyltransferase.
          Length = 174

 Score = 26.3 bits (57), Expect = 8.3
 Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 1/35 (2%)

Query: 43  IFSETPCKHPVIVLK-DVQGWEIQAIVDFMYKGEI 76
            F     K+ + +LK D++G E   +      GE 
Sbjct: 85  FFKNILKKNTIDILKIDIEGAEYPVLDMLHRNGEF 119


  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
   0.323    0.139    0.416 

Gapped
Lambda     K      H
   0.267   0.0721    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,846,036
Number of extensions: 806658
Number of successful extensions: 623
Number of sequences better than 10.0: 1
Number of HSP's gapped: 622
Number of HSP's successfully gapped: 16
Length of query: 176
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 86
Effective length of database: 6,945,742
Effective search space: 597333812
Effective search space used: 597333812
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (25.4 bits)