RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11667
         (119 letters)



>gnl|CDD|201791 pfam01428, zf-AN1, AN1-like Zinc finger.  Zinc finger at the
          C-terminus of An1, a ubiquitin-like protein in Xenopus
          laevis. The following pattern describes the zinc
          finger. C-X2-C-X(9-12)-C-X(1-2)-C-X4-C-X2-H-X5-H-X-C
          Where X can be any amino acid, and numbers in brackets
          indicate the number of residues.
          Length = 43

 Score = 41.7 bits (98), Expect = 2e-06
 Identities = 14/28 (50%), Positives = 17/28 (60%), Gaps = 1/28 (3%)

Query: 72 FTCR-CRKLFCPRHRHPEEHACTFDYKA 98
          F CR C   FC +HR PE+H C   YK+
Sbjct: 14 FKCRFCGGTFCLKHRLPEDHNCPGLYKS 41


>gnl|CDD|197545 smart00154, ZnF_AN1, AN1-like Zinc finger.  Zinc finger at the
          C-terminus of An1, a ubiquitin-like protein in Xenopus
          laevis.
          Length = 39

 Score = 38.1 bits (89), Expect = 3e-05
 Identities = 16/39 (41%), Positives = 19/39 (48%)

Query: 59 CAQCNAKLTVCSSFTCRCRKLFCPRHRHPEEHACTFDYK 97
          C  C  K+ +       C  LFC  HR PE+H C  DYK
Sbjct: 1  CHFCRKKVGLTGFKCRHCGNLFCGEHRLPEDHDCPGDYK 39


>gnl|CDD|219360 pfam07275, ArdA, Antirestriction protein (ArdA).  This family
           consists of several bacterial antirestriction (ArdA)
           proteins. ArdA functions in bacterial conjugation to
           allow an unmodified plasmid to evade restriction in the
           recipient bacterium and yet acquire cognate
           modification.
          Length = 166

 Score = 29.2 bits (66), Expect = 0.38
 Identities = 10/17 (58%), Positives = 11/17 (64%)

Query: 87  PEEHACTFDYKAYGRHL 103
           PE     FDY+AYGR L
Sbjct: 134 PESLRNYFDYEAYGRDL 150


>gnl|CDD|188744 cd09358, LIM_Mical_like, The LIM domain of Mical (molecule
          interacting with CasL) like family.  The LIM domain of
          Mical (molecule interacting with CasL) like family:
          Known members of this family includes  LIM domain
          containing proteins; Mical (molecule interacting with
          CasL), pollen specific protein SF3, Eplin, xin
          actin-binding repeat-containing protein 2 (XIRP2) and
          Ltd-1. The members of this family function mainly at
          the cytoskeleton and focal adhesions. They interact
          with transcription factors or other signaling molecules
          to play roles in muscle development, neuronal
          differentiation, cell growth and mobility.  Eplin has
          also found to be tumor suppressor. As in other LIM
          domains, this domain family is 50-60 amino acids in
          size and shares two characteristic zinc finger motifs..
          The two zinc fingers contain eight conserved residues,
          mostly cysteines and histidines, which coordinately
          bond to two zinc atoms. LIM domains function as
          adaptors or scaffolds to support the assembly of
          multimeric protein.
          Length = 53

 Score = 26.5 bits (59), Expect = 0.93
 Identities = 9/27 (33%), Positives = 14/27 (51%), Gaps = 1/27 (3%)

Query: 58 RCAQCNAKLTVCSSFTCRCRKLFCPRH 84
          RC+ CN  L +  ++     KL+C  H
Sbjct: 27 RCSHCNKTLRL-GNYASLEGKLYCKPH 52


>gnl|CDD|226857 COG4449, COG4449, Predicted protease of the Abi (CAAX) family
           [General function prediction only].
          Length = 827

 Score = 28.0 bits (62), Expect = 1.2
 Identities = 8/18 (44%), Positives = 10/18 (55%)

Query: 16  SKDLPPSTPRPGKNSPAG 33
           + D   STPR   +SP G
Sbjct: 261 NGDRFMSTPRDLASSPVG 278


>gnl|CDD|223970 COG1040, ComFC, Predicted amidophosphoribosyltransferases [General
           function prediction only].
          Length = 225

 Score = 27.7 bits (62), Expect = 1.4
 Identities = 11/69 (15%), Positives = 16/69 (23%), Gaps = 7/69 (10%)

Query: 47  GCVKKTKHKRSRCAQCNAKLTVCSSFTCRC-------RKLFCPRHRHPEEHACTFDYKAY 99
           GC        + C  C   L+  +     C        +L      +          K  
Sbjct: 29  GCQADLPLIGNLCPLCGLPLSSHACRCGECLAKPPPFERLRSLGSYNGPLRELISQLKFQ 88

Query: 100 GRHLLAATN 108
           G   LA   
Sbjct: 89  GDLDLAKLL 97


>gnl|CDD|235501 PRK05559, PRK05559, DNA topoisomerase IV subunit B; Reviewed.
          Length = 631

 Score = 25.4 bits (57), Expect = 9.9
 Identities = 6/22 (27%), Positives = 10/22 (45%)

Query: 50  KKTKHKRSRCAQCNAKLTVCSS 71
           K  + K++       KL  C+S
Sbjct: 389 KVKRKKKTSGPALPGKLADCTS 410


  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
   0.320    0.131    0.418 

Gapped
Lambda     K      H
   0.267   0.0633    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,716,258
Number of extensions: 445698
Number of successful extensions: 517
Number of sequences better than 10.0: 1
Number of HSP's gapped: 516
Number of HSP's successfully gapped: 33
Length of query: 119
Length of database: 10,937,602
Length adjustment: 82
Effective length of query: 37
Effective length of database: 7,300,574
Effective search space: 270121238
Effective search space used: 270121238
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.4 bits)