RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10295
         (115 letters)



>gnl|CDD|218212 pfam04685, DUF608, Protein of unknown function, DUF608.  This
           family represents a conserved region with a pankaryotic
           distribution in a number of uncharacterized proteins.
          Length = 357

 Score =  116 bits (292), Expect = 1e-32
 Identities = 44/96 (45%), Positives = 59/96 (61%)

Query: 12  FEAGSMGAVNGMKPNGDRDRSAIQSEEVWTGVTYLLSAAMLYEGNVDEAWTTAGGLYRTV 71
           F  G  GAVNGM P+G  D  ++QS EVWTG+ Y L+A M+ EG V+E    A G+Y   
Sbjct: 262 FLNGEAGAVNGMWPDGSVDTPSVQSLEVWTGIEYALAAHMIQEGMVEEGLKIAKGVYDRY 321

Query: 72  YERTGLGFETPEGLTGDKTYRSGGYMRALAVYAMQD 107
             R G  + TPE +T + TYR   YMR +A++A+Q 
Sbjct: 322 DGRLGNPWNTPEAITANGTYRGSHYMRPMAIWAIQL 357


>gnl|CDD|226800 COG4354, COG4354, Predicted bile acid beta-glucosidase
           [Carbohydrate transport and metabolism].
          Length = 721

 Score = 54.5 bits (131), Expect = 7e-10
 Identities = 27/97 (27%), Positives = 48/97 (49%), Gaps = 4/97 (4%)

Query: 12  FEAGSMGAVNGMKPNGDRD-RSAIQSEEVWTGVTYLLSAAMLYEGNVDEAWTTAGGLYRT 70
           F A    A NG++P+G      ++Q   VW G+ + L+A M+  G  DE +  A  ++  
Sbjct: 618 FNASEYCAANGVRPDGSPVNPLSVQPLSVWPGINFALAAHMIQMGMKDEGFELAENVWNQ 677

Query: 71  VYERTGLGFETPEGLT--GDKTYRSGGYMRALAVYAM 105
           +    GL F  P  +   G +T R   Y+ + +++A+
Sbjct: 678 LKN-NGLQFRQPSAINAVGGETNRLSHYVGSPSIWAL 713


>gnl|CDD|99820 cd05777, DNA_polB_delta_exo, DEDDy 3'-5' exonuclease domain of
           eukaryotic DNA polymerase delta, a family-B DNA
           polymerase.  The 3'-5' exonuclease domain of eukaryotic
           DNA polymerase delta. DNA polymerase delta is a family-B
           DNA polymerase with a catalytic subunit that contains a
           DEDDy-type DnaQ-like 3'-5' exonuclease domain. It is one
           of the three DNA-dependent type B DNA polymerases (alpha
           and epsilon are the other two) that have been identified
           as essential for nuclear DNA replication in eukaryotes.
           DNA polymerase delta is the enzyme responsible for both
           elongation and maturation of Okazaki fragments on the
           lagging strand. It is also implicated in mismatch repair
           (MMR) and base excision repair (BER). The catalytic
           subunit displays both polymerase and 3'-5' exonuclease
           activities. The exonuclease domain contains three
           sequence motifs termed ExoI, ExoII and ExoIII, with a
           specific YX(3)D pattern at ExoIII. These motifs are
           clustered around the active site and contain four
           conserved acidic residues necessary for metal binding
           and catalysis. The exonuclease domain of family B
           polymerase also contains a beta hairpin structure that
           plays an important role in active site switching in the
           event of nucleotide misincorporation.
          Length = 230

 Score = 26.0 bits (58), Expect = 4.2
 Identities = 11/24 (45%), Positives = 14/24 (58%), Gaps = 5/24 (20%)

Query: 87  GDKTYRSGGYMRALAVYAMQDAYL 110
           G+   R     R LAVY ++DAYL
Sbjct: 197 GNPETR-----RRLAVYCLKDAYL 215


>gnl|CDD|227073 COG4729, COG4729, Uncharacterized conserved protein [Function
           unknown].
          Length = 156

 Score = 25.9 bits (57), Expect = 4.5
 Identities = 10/41 (24%), Positives = 12/41 (29%), Gaps = 8/41 (19%)

Query: 67  LYRTVYERTGLGFETPEGLTGDKTYRSGGYMRALAVYAMQD 107
           L  T     G G  +PEG     T   G +      Y    
Sbjct: 71  LEETRVRSFGAGMPSPEGA----TLEDGAWF----YYRGVR 103


>gnl|CDD|224103 COG1182, AcpD, Acyl carrier protein phosphodiesterase [Lipid
           metabolism].
          Length = 202

 Score = 26.1 bits (58), Expect = 4.5
 Identities = 11/36 (30%), Positives = 13/36 (36%), Gaps = 5/36 (13%)

Query: 82  PEGLTGDK-----TYRSGGYMRALAVYAMQDAYLKG 112
           P GL   K     T R G Y    A     + YL+ 
Sbjct: 127 PVGLLTGKKVLILTSRGGIYSEGPASMDHGEPYLRT 162


>gnl|CDD|165416 PHA03145, PHA03145, helicase-primase primase subunit; Provisional.
          Length = 1058

 Score = 25.3 bits (55), Expect = 9.0
 Identities = 12/21 (57%), Positives = 16/21 (76%)

Query: 3    KKSRASARGFEAGSMGAVNGM 23
            + SRA+AR F A S+GA NG+
Sbjct: 993  RASRATARTFLALSVGARNGL 1013


  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
   0.313    0.130    0.379 

Gapped
Lambda     K      H
   0.267   0.0726    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,883,121
Number of extensions: 499429
Number of successful extensions: 256
Number of sequences better than 10.0: 1
Number of HSP's gapped: 256
Number of HSP's successfully gapped: 15
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 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.2 bits)