RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy18155
         (185 letters)



>gnl|CDD|219941 pfam08623, TIP120, TATA-binding protein interacting (TIP20).
           TIP120 (also known as cullin-associated and
           neddylation-dissociated protein 1) is a TATA binding
           protein interacting protein that enhances transcription.
          Length = 169

 Score = 71.5 bits (176), Expect = 5e-16
 Identities = 28/42 (66%), Positives = 35/42 (83%)

Query: 144 SLVIDLLDSVLPQLYAETAVKKTLIREVEMGPFKHTVDDGLD 185
            L++ LL+ +LP LY+ET VKK LIREV+MGPFKH VDDGL+
Sbjct: 1   DLILPLLNELLPALYSETKVKKELIREVQMGPFKHVVDDGLE 42



 Score = 29.1 bits (66), Expect = 0.80
 Identities = 12/25 (48%), Positives = 18/25 (72%)

Query: 81  SLVIDLLDSVLPQLYAETAVKPQSI 105
            L++ LL+ +LP LY+ET VK + I
Sbjct: 1   DLILPLLNELLPALYSETKVKKELI 25


>gnl|CDD|179157 PRK00889, PRK00889, adenylylsulfate kinase; Provisional.
          Length = 175

 Score = 30.8 bits (70), Expect = 0.23
 Identities = 23/69 (33%), Positives = 32/69 (46%), Gaps = 13/69 (18%)

Query: 59  DSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAETAVKPQSIDPLLRQTIGDFLS 118
           D D N+RR+  VA     H     VI L+ ++ P  Y ET  +       +R  IG+FL 
Sbjct: 57  DRDTNIRRIGFVANLLTRHG----VIVLVSAISP--YRETREE-------VRANIGNFLE 103

Query: 119 ALKDSDLNV 127
              D+ L V
Sbjct: 104 VFVDAPLEV 112


>gnl|CDD|211974 TIGR04251, SCM_rSAM_ScmF, SynChlorMet cassette radical SAM/SPASM
           protein ScmF.  A biosynthesis cassette found in
           Syntrophobacter fumaroxidans MPOB, Chlorobium limicola
           DSM 245, Methanocella paludicola SANAE, and delta
           proteobacterium NaphS2 contains two PqqE-like radical
           SAM/SPASM domain proteins, a PqqD homolog, and a
           conserved hypothetical protein. These components suggest
           modification of a ribosomally produced peptide
           precursor, but the precursor has not been identified. Of
           the two PqqE homologs of the cassette, this family is
           the more distant in sequence.
          Length = 353

 Score = 30.6 bits (69), Expect = 0.38
 Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 72  FNSAAHNKPSLVIDLLDSVLPQL--YAETAVKPQSIDPLLRQTIGDFLSALKDSDLNV 127
           +       PSL   L  S++ Q      T+VK    +PLL   IG+ L  + +++L +
Sbjct: 27  YQGEGEQHPSLDPSLFRSIIRQAIPLGLTSVKLTGGEPLLHPAIGEILECIGENNLQL 84


>gnl|CDD|218854 pfam06012, DUF908, Domain of Unknown Function (DUF908). 
          Length = 309

 Score = 28.9 bits (65), Expect = 1.6
 Identities = 22/88 (25%), Positives = 37/88 (42%), Gaps = 4/88 (4%)

Query: 69  LVAFNSAAHNKPSLVIDLLD-SVLPQLYAETAVKPQ--SIDPLLRQTIGDFLSALKDSDL 125
              F+  ++ +  L I LL  S L  L  E A   +    DP   + + + LS       
Sbjct: 203 AKGFSDDSYRRQLLQIRLLAISNLVYLLIEPAFSSKFLESDPEFFEELVELLSPSDKVPR 262

Query: 126 NVRRVALVAFNSAAHNKPSLVIDLLDSV 153
            +R +AL A  + +H K     D+L ++
Sbjct: 263 ELRTIALEALEAISH-KRVKYSDVLRAL 289


>gnl|CDD|181173 PRK07937, PRK07937, lipid-transfer protein; Provisional.
          Length = 352

 Score = 28.5 bits (64), Expect = 2.2
 Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 4/45 (8%)

Query: 128 RRVALVAFNSAAHNKPSL----VIDLLDSVLPQLYAETAVKKTLI 168
           R VA+V F  A H + +      +++L     +LYAE  + K+ I
Sbjct: 2   RDVAVVGFAQAPHVRRTDGTTNGVEMLMPCFAELYAELGITKSDI 46



 Score = 27.0 bits (60), Expect = 6.0
 Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 4/46 (8%)

Query: 65  RRVALVAFNSAAHNKPSL----VIDLLDSVLPQLYAETAVKPQSID 106
           R VA+V F  A H + +      +++L     +LYAE  +    I 
Sbjct: 2   RDVAVVGFAQAPHVRRTDGTTNGVEMLMPCFAELYAELGITKSDIG 47


>gnl|CDD|221731 pfam12717, Cnd1, non-SMC mitotic condensation complex subunit 1.
           The three non-SMC (structural maintenance of
           chromosomes) subunits of the mitotic condensation
           complex are Cnd1-3. The whole complex is essential for
           viability and the condensing of chromosomes in mitosis.
          Length = 171

 Score = 27.9 bits (63), Expect = 2.4
 Identities = 25/112 (22%), Positives = 39/112 (34%), Gaps = 29/112 (25%)

Query: 39  PQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAET 98
           P  ++P          + L+D D  VR+ AL+                   VL  L    
Sbjct: 20  PNLVEPYTPN----LYACLRDEDPYVRKTALL-------------------VLTHLILND 56

Query: 99  AVKPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLL 150
            VK +       Q   + L  L D D  +R +A   F+      P+L+ +L 
Sbjct: 57  MVKVK------GQLFLEMLKCLVDEDPEIRALAKSFFSELLKKNPNLIYNLF 102


>gnl|CDD|180281 PRK05839, PRK05839, hypothetical protein; Provisional.
          Length = 374

 Score = 27.3 bits (61), Expect = 4.7
 Identities = 13/45 (28%), Positives = 25/45 (55%), Gaps = 6/45 (13%)

Query: 24 LQESLKSNSALMRTTPQSI-DPLLRQTIGDFLS-----ALKDSDL 62
          +Q++LK+N+ L+   P+S  +  LR+    F        LK+++L
Sbjct: 42 IQDALKNNAHLLNKYPKSAGEESLREAQRGFFKRRFKIELKENEL 86


>gnl|CDD|237512 PRK13800, PRK13800, putative oxidoreductase/HEAT repeat-containing
           protein; Provisional.
          Length = 897

 Score = 26.7 bits (59), Expect = 8.2
 Identities = 31/103 (30%), Positives = 41/103 (39%), Gaps = 24/103 (23%)

Query: 32  SALMRTTPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVL 91
           + L  TTP    P L       ++AL D    VRR       +AA     LV      VL
Sbjct: 643 AVLTETTPPGFGPAL-------VAALGDGAAAVRR-------AAAEGLRELV-----EVL 683

Query: 92  PQLYAETAVKPQ--SIDPLLRQTIGDFLSALKDSDLNVRRVAL 132
           P      A++    S DP++R    D L AL+  D  +   AL
Sbjct: 684 P---PAPALRDHLGSPDPVVRAAALDVLRALRAGDAALFAAAL 723


>gnl|CDD|227619 COG5302, COG5302, Post-segregation antitoxin (ccd killing
          mechanism protein) encoded by the F plasmid [General
          function prediction only].
          Length = 80

 Score = 25.3 bits (55), Expect = 8.9
 Identities = 9/46 (19%), Positives = 15/46 (32%)

Query: 34 LMRTTPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNK 79
          L R T Q +         + L   +   LN+  +A  A  +     
Sbjct: 2  LSRRTKQIVTAANVTVDDELLERARALGLNISALAETAIAAELRKS 47


  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
   0.318    0.134    0.366 

Gapped
Lambda     K      H
   0.267   0.0715    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,181,907
Number of extensions: 847986
Number of successful extensions: 942
Number of sequences better than 10.0: 1
Number of HSP's gapped: 936
Number of HSP's successfully gapped: 36
Length of query: 185
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 94
Effective length of database: 6,901,388
Effective search space: 648730472
Effective search space used: 648730472
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: 56 (25.4 bits)