RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16286
         (92 letters)



>gnl|CDD|221913 pfam13087, AAA_12, AAA domain.  This family of domains contain a
           P-loop motif that is characteristic of the AAA
           superfamily. Many of the proteins in this family are
           conjugative transfer proteins.
          Length = 195

 Score = 49.1 bits (118), Expect = 1e-08
 Identities = 17/34 (50%), Positives = 23/34 (67%)

Query: 6   NNVHNNVGFLKTVNRVCVALSRAKQGLFIMGNMK 39
           +N    +GFL    R+ VAL+RAK+GL I+GN K
Sbjct: 162 SNEKGGIGFLSDPRRLNVALTRAKRGLIIVGNAK 195


>gnl|CDD|224037 COG1112, COG1112, Superfamily I DNA and RNA helicases and helicase
           subunits [DNA replication, recombination, and repair].
          Length = 767

 Score = 40.7 bits (95), Expect = 2e-05
 Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 4/71 (5%)

Query: 3   GSTNNVHNNVGFLKTVNRVCVALSRAKQGLFIMGNMKCLSADSQLWQEIKNKLVTR---R 59
             +N+    +GFL    R+ VAL+RAK+ L ++G+   L +D  L++ + N L  +    
Sbjct: 693 VRSNDDKGEIGFLGDPRRLNVALTRAKRKLIVVGSSSTLESD-PLYKRLINDLKRKGLLA 751

Query: 60  SINESFRLQCN 70
            +N       +
Sbjct: 752 ELNLLDLRLTD 762


>gnl|CDD|234013 TIGR02785, addA_Gpos, helicase-exonuclease AddAB, AddA subunit,
           Firmicutes type.  AddAB, also called RexAB, substitutes
           for RecBCD in several bacterial lineages. These DNA
           recombination proteins act before synapse and are
           particularly important for DNA repair of double-stranded
           breaks by homologous recombination. The term AddAB is
           used broadly, with AddA homologous between the
           Firmicutes (as modeled here) and the
           alphaproteobacteria, while the partner AddB proteins
           show no strong homology across the two groups of species
           [DNA metabolism, DNA replication, recombination, and
           repair].
          Length = 1230

 Score = 35.8 bits (83), Expect = 0.001
 Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 2/46 (4%)

Query: 23  VALSRAKQGLFIMGNMKCLSADSQLWQEIKNKLVTRRSINESFRLQ 68
           VAL+RAK+ L ++G++K    + + W        +   + E+ RLQ
Sbjct: 863 VALTRAKEKLILVGSVKDEKKELKKWL--AALAQSDWLLPENDRLQ 906


>gnl|CDD|232945 TIGR00376, TIGR00376, DNA helicase, putative.  The gene product may
           represent a DNA helicase. Eukaryotic members of this
           family have been characterized as binding certain
           single-stranded G-rich DNA sequences (GGGGT and GGGCT).
           A number of related proteins are characterized as
           helicases [DNA metabolism, DNA replication,
           recombination, and repair].
          Length = 637

 Score = 35.6 bits (82), Expect = 0.001
 Identities = 16/38 (42%), Positives = 25/38 (65%)

Query: 7   NVHNNVGFLKTVNRVCVALSRAKQGLFIMGNMKCLSAD 44
           N    VGFLK + R+ VAL+RA++ L ++G+ + LS  
Sbjct: 578 NRKGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNH 615


>gnl|CDD|215953 pfam00500, Late_protein_L1, L1 (late) protein. 
          Length = 500

 Score = 28.8 bits (65), Expect = 0.35
 Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 3/44 (6%)

Query: 5   TNNVHNNVGFLKTVNRVCVALSRAKQGLFIMGNMKCLSADSQLW 48
           T N    +      +R  V++   +  LFI+G   C  A  + W
Sbjct: 127 TENSSKYITNHGDDDRQNVSMDPKQTQLFIVG---CTPAIGEHW 167


>gnl|CDD|107367 cd06372, PBP1_GC_G_like, Ligand-binding domain of membrane guanylyl
           cyclase G.  This group includes the ligand-binding
           domain of membrane guanylyl cyclase G (GC-G) which is a
           sperm surface receptor and might function, similar to
           its sea urchin counterpart, in the early signaling event
           that regulates the Ca2+ influx/efflux and subsequent
           motility response in sperm. GC-G appears to be a
           pseudogene in human. Furthermore, in contrast to the
           other orphan receptor GCs, GC-G has a broad tissue
           distribution in rat, including lung, intestine, kidney,
           and skeletal muscle.
          Length = 391

 Score = 27.5 bits (61), Expect = 1.0
 Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 3/50 (6%)

Query: 34  IMGNMKCLSADSQLWQEIKNKLVTRRSINESFRLQCNKHRAVTIIRAVED 83
           I   ++  S++  L QE   KL    S+     L C+   A  I++A E 
Sbjct: 172 ITATVRYSSSNPDLLQE---KLRYISSVARVIILICSSEDAKAILQAAEK 218


>gnl|CDD|237554 PRK13909, PRK13909, putative recombination protein RecB;
           Provisional.
          Length = 910

 Score = 26.1 bits (58), Expect = 3.1
 Identities = 6/17 (35%), Positives = 10/17 (58%)

Query: 23  VALSRAKQGLFIMGNMK 39
           VA +RAK  L ++   +
Sbjct: 687 VAFTRAKNSLIVVKKDE 703


>gnl|CDD|232926 TIGR00337, PyrG, CTP synthase.  CTP synthase is involved in
           pyrimidine ribonucleotide/ribonucleoside metabolism. The
           enzyme catalyzes the reaction L-glutamine + H2O + UTP +
           ATP = CTP + phosphate + ADP + L-glutamate. The enzyme
           exists as a dimer of identical chains that aggregates as
           a tetramer. This gene has been found circa 500 bp 5'
           upstream of enolase in both beta (Nitrosomonas europaea)
           and gamma (E.coli) subdivisions of proteobacterium (FEMS
           Microbiol Lett 1998 Aug 1;165(1):153-7) [Purines,
           pyrimidines, nucleosides, and nucleotides, Pyrimidine
           ribonucleotide biosynthesis].
          Length = 525

 Score = 25.0 bits (55), Expect = 6.5
 Identities = 13/37 (35%), Positives = 18/37 (48%), Gaps = 4/37 (10%)

Query: 23  VALSRAKQGL--FIMG--NMKCLSADSQLWQEIKNKL 55
           V L   KQGL  ++    N+ C  AD   W+E+  K 
Sbjct: 247 VPLLLLKQGLDDYLCRRLNLNCDEADLSEWEELVEKF 283


>gnl|CDD|114523 pfam05801, DUF840, Lagovirus protein of unknown function
          (DUF840).  This family consists of several Lagovirus
          sequences of unknown function, largely from rabbit
          hemorrhagic disease virus.
          Length = 114

 Score = 24.6 bits (53), Expect = 7.4
 Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 1/31 (3%)

Query: 50 EIKNKLVTRRSINESFRLQCNKHRAVTIIRA 80
          E+K  +V     NE+FRL  N H   +++ A
Sbjct: 52 EVKGLIVNGNGFNENFRLS-NMHNDASVVNA 81


>gnl|CDD|216506 pfam01443, Viral_helicase1, Viral (Superfamily 1) RNA helicase.
           Helicase activity for this family has been demonstrated
           and NTPase activity. This helicase has multiple roles at
           different stages of viral RNA replication, as dissected
           by mutational analysis.
          Length = 226

 Score = 24.6 bits (54), Expect = 9.5
 Identities = 6/14 (42%), Positives = 10/14 (71%)

Query: 23  VALSRAKQGLFIMG 36
           VAL+R ++ L I+ 
Sbjct: 213 VALTRHRKSLHILT 226


  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
   0.326    0.133    0.405 

Gapped
Lambda     K      H
   0.267   0.0812    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,195,046
Number of extensions: 308431
Number of successful extensions: 303
Number of sequences better than 10.0: 1
Number of HSP's gapped: 303
Number of HSP's successfully gapped: 11
Length of query: 92
Length of database: 10,937,602
Length adjustment: 59
Effective length of query: 33
Effective length of database: 8,320,716
Effective search space: 274583628
Effective search space used: 274583628
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.0 bits)