RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy14973
         (111 letters)



>gnl|CDD|216939 pfam02229, PC4, Transcriptional Coactivator p15 (PC4).  p15 has a
           bipartite structure composed of an amino-terminal
           regulatory domain and a carboxy-terminal cryptic
           DNA-binding domain. The DNA-binding activity of the
           carboxy-terminal is disguised by the amino-terminal p15
           domain. Activity is controlled by protein kinases that
           target the regulatory domain.
          Length = 81

 Score = 80.4 bits (199), Expect = 2e-21
 Identities = 36/88 (40%), Positives = 50/88 (56%), Gaps = 7/88 (7%)

Query: 21  PAKKPQPAASKKGGASKDGESSGGPAGSWCLEGMRFVKVDEFRGRPLISIREYYEKNGQL 80
           P KK     SK   +SK  ++ G     + L   R V V EF+G+ L+ IREYYEK+G++
Sbjct: 1   PVKK-----SKSEESSKGSDAEGDIF--FELSKNRRVTVSEFKGKTLVDIREYYEKDGEM 53

Query: 81  LPGKKGISLSATQWRKLLTLQDSVNSEL 108
           LPGKKGISL+  QW  L      ++  +
Sbjct: 54  LPGKKGISLTLEQWNALKEHIPEIDDAI 81


>gnl|CDD|237491 PRK13759, PRK13759, arylsulfatase; Provisional.
          Length = 485

 Score = 27.7 bits (62), Expect = 1.3
 Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 5/44 (11%)

Query: 42  SGGPAGSWCLEGMRFVKVDEFRGRPLISIREYYEKNGQLLPGKK 85
           S        L  MR   VD  RGR      E + K+G+L+ G+ 
Sbjct: 437 SPSEKYQPRLREMRKKLVDHLRGR-----EEGFVKDGKLVVGEL 475


>gnl|CDD|205278 pfam13097, CENP-U, CENP-A nucleosome associated complex (NAC)
           subunit.  CENP-U is one of the components that assembles
           onto the CENP-A-nucleosome associated complex (NAC). The
           centromere, which is the basic element of chromosome
           inheritance, is epigenetically determined in mammals.
           CENP-A, the centromere-specific histone H3 variant,
           assembles an array of nucleosomes and it is this that
           seems to be the prime candidate for specifying
           centromere identity. CENP-A nucleosomes directly recruit
           a proximal CENP-A nucleosome associated complex (NAC)
           comprised of CENP-M, CENP-N and CENP-T, CENP-U(50),
           CENP-C and CENP-H. Assembly of the CENP-A NAC at
           centromeres is dependent on CENP-M, CENP-N and CENP-T.
           Additionally, there are seven other subunits which make
           up the CENP-A-nucleosome distal (CAD) centromere,
           CENP-K, CENP-L, CENP-O, CENP-P, CENP-Q, CENP-R and
           CENP-S, also assembling on the CENP-A NAC. FTA4 is the
           equivalent component of the fission yeast Sim4 complex.
          Length = 174

 Score = 26.5 bits (58), Expect = 2.9
 Identities = 14/39 (35%), Positives = 17/39 (43%)

Query: 23  KKPQPAASKKGGASKDGESSGGPAGSWCLEGMRFVKVDE 61
           KK  P   KK  +S  G  S      WCLEG +   + E
Sbjct: 66  KKLSPGRRKKPRSSHSGSDSSDSVHVWCLEGKKRSDITE 104


>gnl|CDD|217142 pfam02613, Nitrate_red_del, Nitrate reductase delta subunit.
          This family is the delta subunit of the nitrate
          reductase enzyme, The delta subunit is not part of the
          nitrate reductase enzyme but is most likely needed for
          assembly of the multi-subunit enzyme complex. In the
          absence of the delta subunit the core alpha beta enzyme
          complex is unstable. The delta subunit is essential for
          enzyme activity in vivo and in vitro. The nitrate
          reductase enzyme, EC:1.7.99.4 catalyze the conversion
          of nitrite to nitrate via the reduction of an acceptor.
          The nitrate reductase enzyme is composed of three
          subunits. Nitrate is the most widely used alternative
          electron acceptor after oxygen. This family also now
          contains the family TorD, a family of cytoplasmic
          chaperone proteins; like many prokaryotic
          molybdoenzymes, the TMAO reductase (TorA) of
          Escherichia coli requires the insertion of a
          bis(molybdopterin guanine dinucleotide) molybdenum
          (bis(MGD)Mo) cofactor in its catalytic site to be
          active and translocated to the periplasm. The TorD
          chaperone increases apoTorA activation up to four-fold,
          allowing maturation of most of the apoprotein.
          Therefore TorD is involved in the first step of TorA
          maturation to make it competent to receive the
          cofactor.
          Length = 133

 Score = 26.1 bits (58), Expect = 3.5
 Identities = 10/35 (28%), Positives = 13/35 (37%), Gaps = 7/35 (20%)

Query: 44 GPAGSWCLEGMRFVKVDEFRGRPLISIREYYEKNG 78
           P  S  L G         RG+ L  +R +Y   G
Sbjct: 48 PPYASVYLTG-------RLRGQALAELRAFYRAAG 75


>gnl|CDD|182714 PRK10769, folA, dihydrofolate reductase; Provisional.
          Length = 159

 Score = 26.2 bits (58), Expect = 3.6
 Identities = 11/27 (40%), Positives = 17/27 (62%)

Query: 64 GRPLISIREYYEKNGQLLPGKKGISLS 90
           +P+I  R  +E  G+ LPG+K I +S
Sbjct: 37 NKPVIMGRHTWESIGRPLPGRKNIVIS 63


>gnl|CDD|150349 pfam09655, Nitr_red_assoc, Conserved nitrate reductase-associated
           protein (Nitr_red_assoc).  Proteins in this entry are
           found in the Cyanobacteria, and are mostly encoded near
           nitrate reductase and molybdopterin biosynthesis genes.
           Molybdopterin guanine dinucleotide is a cofactor for
           nitrate reductase. These proteins are sometimes
           annotated as nitrate reductase-associated proteins,
           though their function is unknown.
          Length = 144

 Score = 25.3 bits (56), Expect = 6.2
 Identities = 7/18 (38%), Positives = 10/18 (55%)

Query: 84  KKGISLSATQWRKLLTLQ 101
           + G+ L+  QW  L  LQ
Sbjct: 103 ELGVPLTLAQWAALTPLQ 120


>gnl|CDD|233261 TIGR01073, pcrA, ATP-dependent DNA helicase PcrA.  Designed to
           identify pcrA members of the uvrD/rep subfamily [DNA
           metabolism, DNA replication, recombination, and repair].
          Length = 726

 Score = 25.5 bits (56), Expect = 8.2
 Identities = 11/38 (28%), Positives = 18/38 (47%), Gaps = 3/38 (7%)

Query: 15  REGTRGPAKKPQPAASKKGGASKD---GESSGGPAGSW 49
             G R  A  P+  + ++ GAS+      ++GG   SW
Sbjct: 641 STGRRTGATDPKGPSIRQAGASRPTTSQPTAGGDTLSW 678


  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
   0.314    0.134    0.393 

Gapped
Lambda     K      H
   0.267   0.0579    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,516,174
Number of extensions: 458878
Number of successful extensions: 279
Number of sequences better than 10.0: 1
Number of HSP's gapped: 279
Number of HSP's successfully gapped: 10
Length of query: 111
Length of database: 10,937,602
Length adjustment: 75
Effective length of query: 36
Effective length of database: 7,611,052
Effective search space: 273997872
Effective search space used: 273997872
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.5 bits)