RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17360
         (115 letters)



>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 = 79.6 bits (197), Expect = 8e-21
 Identities = 33/92 (35%), Positives = 51/92 (55%), Gaps = 3/92 (3%)

Query: 22  FETLFKSESLTDVTLFCEGVTFKAHKIILAACSKHFQDLFEAAPFCPNILIILDGTSSGN 81
              L ++  L DVTL      F AHK +LAACS +F+ LF        + I L+  S  +
Sbjct: 1   LNELRENGELCDVTLVVGDKEFHAHKAVLAACSPYFKALFTG---NKEVEITLEDVSPED 57

Query: 82  MSALLEFMYKGEVHVSQESLSGFLKAAESLQL 113
             ALLEF+Y G++ +++E++   L  A+ LQ+
Sbjct: 58  FEALLEFIYTGKLEITEENVDDLLALADKLQI 89


>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 = 73.1 bits (180), Expect = 2e-18
 Identities = 31/82 (37%), Positives = 47/82 (57%), Gaps = 1/82 (1%)

Query: 33  DVTLFCEGVTFKAHKIILAACSKHFQDLFEAAPFCPNIL-IILDGTSSGNMSALLEFMYK 91
           DVTL   G  F AHK +LAA S +F+ LF +     +   I LD  S  +  ALL F+Y 
Sbjct: 1   DVTLVVGGKKFHAHKAVLAAHSPYFKALFSSDFKESDKSEIYLDDVSPEDFRALLNFLYT 60

Query: 92  GEVHVSQESLSGFLKAAESLQL 113
           G++ + +E++   L+ A+ LQ+
Sbjct: 61  GKLDLPEENVEELLELADYLQI 82


>gnl|CDD|165086 PHA02713, PHA02713, hypothetical protein; Provisional.
          Length = 557

 Score = 35.8 bits (82), Expect = 0.002
 Identities = 29/100 (29%), Positives = 49/100 (49%), Gaps = 11/100 (11%)

Query: 18  LVTTFETLFKSESLTDVTL-FCEGVTFKAHKIILAACSKHFQDLFEAAPFCPNI-----L 71
           +V+    L   + L DV +   +G   KAHK ILAA SK+F+ LF       ++     L
Sbjct: 12  VVSNISNLLDDDILCDVIITIGDGEEIKAHKTILAAGSKYFRTLFTTPMIIRDLVTRVNL 71

Query: 72  IILDGTSSGNMSALLEFMYKGEVHVSQESLSGFLKAAESL 111
            + D  +  N   +++++Y    H+S  ++   LK A+ L
Sbjct: 72  QMFDKDAVKN---IVQYLYNR--HISSMNVIDVLKCADYL 106


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

 Score = 34.7 bits (80), Expect = 0.005
 Identities = 20/93 (21%), Positives = 47/93 (50%), Gaps = 5/93 (5%)

Query: 23  ETLFKSESLTDVTL--FCEGVTFKAHKIILAACSKHFQDLFEAAPFCPNILIILDGTSSG 80
              F+ +   D ++     G   K HKIIL++ S++F+ +F+       I + +D  S  
Sbjct: 1   MYSFELQKFCDESIIIVNGGGIIKVHKIILSSSSEYFKKMFKNNFKENEINLNIDYDS-- 58

Query: 81  NMSALLEFMYKGEVHVSQESLSGFLKAAESLQL 113
             + +++++Y G+++++  ++   L  A  L +
Sbjct: 59  -FNEVIKYIYTGKINITSNNVKDILSIANYLII 90


>gnl|CDD|216166 pfam00872, Transposase_mut, Transposase, Mutator family. 
          Length = 381

 Score = 28.4 bits (64), Expect = 0.66
 Identities = 11/29 (37%), Positives = 18/29 (62%), Gaps = 1/29 (3%)

Query: 74  LDGTSSGNMSALLEFMYKGEVHVSQESLS 102
           + G S+  +S LLE +Y G   VS+ ++S
Sbjct: 112 VKGVSTREVSDLLEELY-GGTGVSKSTVS 139


  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    0.135    0.400 

Gapped
Lambda     K      H
   0.267   0.0732    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,474,390
Number of extensions: 447642
Number of successful extensions: 329
Number of sequences better than 10.0: 1
Number of HSP's gapped: 327
Number of HSP's successfully gapped: 14
Length of query: 115
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 36
Effective length of database: 7,433,636
Effective search space: 267610896
Effective search space used: 267610896
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: 53 (24.2 bits)