RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy2364
         (119 letters)



>gnl|CDD|118132 pfam09596, MamL-1, MamL-1 domain.  The MamL-1 domain is a
          polypeptide of up to 70 residues, numbers 15-67 of
          which adopt an elongated kinked helix that wraps around
          ANK and CSL forming one of the complexes in the
          build-up of the Notch transcriptional complex for
          recruiting general transcription factors.
          Length = 60

 Score = 67.2 bits (164), Expect = 2e-16
 Identities = 30/58 (51%), Positives = 38/58 (65%)

Query: 7  PKRQAVVDRLRRRIENYRRHQSDCVPRYDHSFNGLVERDIQETLLLKQKYLESKAKRS 64
           K  AVV+RLRRRIE  RRH S C  RY+ +    +E + QET+ L Q+ LE KAKR+
Sbjct: 1  RKHSAVVERLRRRIELCRRHHSTCESRYEQAQAEQLELERQETVSLLQRVLEGKAKRA 58


>gnl|CDD|206040 pfam13869, NUDIX_2, Nucleotide hydrolase.  Nudix hydrolases are
          found in all classes of organism and hydrolyse a wide
          range of organic pyrophosphates, including nucleoside
          di- and triphosphates, di-nucleoside and
          diphospho-inositol polyphosphates, nucleotide sugars
          and RNA caps, with varying degrees of substrate
          specificity.
          Length = 188

 Score = 28.7 bits (65), Expect = 0.59
 Identities = 10/24 (41%), Positives = 15/24 (62%)

Query: 3  EALPPKRQAVVDRLRRRIENYRRH 26
          EAL  K  +V +RL+R   NY ++
Sbjct: 17 EALVEKDISVAERLKRLKNNYEKN 40


>gnl|CDD|217949 pfam04186, FxsA, FxsA cytoplasmic membrane protein.  This is a
           bacterial family of cytoplasmic membrane proteins. It
           includes two transmembrane regions. The molecular
           function of FxsA is unknown, but in Escherichia coli its
           over-expression has been shown to alleviate the
           exclusion of phage T7 in those cells with an F plasmid.
          Length = 120

 Score = 26.7 bits (60), Expect = 2.2
 Identities = 8/21 (38%), Positives = 13/21 (61%)

Query: 5   LPPKRQAVVDRLRRRIENYRR 25
           +PP R+ +   LRRR++  R 
Sbjct: 96  IPPTRRLLARLLRRRLQVMRS 116


>gnl|CDD|151890 pfam11451, DUF3202, Protein of unknown function (DUF3202).  This
          archaeal family of proteins has no known function.
          Length = 67

 Score = 25.2 bits (55), Expect = 3.4
 Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 2/50 (4%)

Query: 16 LRRRIENYRRHQSDCVPRYDHSFNGLVERDIQETLLLKQ--KYLESKAKR 63
          L + +E ++ H+       DHSF+G++E   +E +LLK       +KAK 
Sbjct: 4  LDKTLEEWKGHKVAVGIGGDHSFSGILEDFDEEVILLKDVTDVAGNKAKE 53


>gnl|CDD|153282 cd07598, BAR_FAM92, The Bin/Amphiphysin/Rvs (BAR) domain of Family
           with sequence similarity 92 (FAM92).  BAR domains are
           dimerization, lipid binding and curvature sensing
           modules found in many different proteins with diverse
           functions including organelle biogenesis, membrane
           trafficking or remodeling, and cell division and
           migration. This group is composed of proteins from the
           family with sequence similarity 92 (FAM92), which were
           originally identified by the presence of the unknown
           domain DUF1208. This domain shows similarity to the BAR
           domains of sorting nexins. Mammals contain at least two
           member types, FAM92A and FAM92B, which may exist in many
           variants. The Xenopus homolog of FAM92A1, xVAP019, is
           essential for embryo survival and cell differentiation.
           FAM92A1 may be involved in regulating cell proliferation
           and apoptosis. BAR domains form dimers that bind to
           membranes, induce membrane bending and curvature, and
           may also be involved in protein-protein interactions.
          Length = 211

 Score = 26.1 bits (58), Expect = 5.1
 Identities = 24/92 (26%), Positives = 43/92 (46%), Gaps = 6/92 (6%)

Query: 9   RQAVVDRLRRR-IENYRRHQSDCVPRYDHSFNGLVERDIQETLLLKQKYLESKAKRSKNK 67
           RQA V+RL  + ++    + + C    D   N    R+     L + K LE    R KN 
Sbjct: 77  RQAEVERLEAKVVQPLALYGTICKHARDDLKNTFTARN---KELKQLKQLE--KLRQKNP 131

Query: 68  PEKKLPSQLDSGLHNASLPYHKAVSTHIDDID 99
            ++++ SQ +S L  AS+  +++     + +D
Sbjct: 132 SDRQIISQAESELQKASVDANRSTKELEEQMD 163


>gnl|CDD|161785 TIGR00239, 2oxo_dh_E1, 2-oxoglutarate dehydrogenase, E1 component. 
           The 2-oxoglutarate dehydrogenase complex consists of
           this thiamine pyrophosphate-binding subunit (E1),
           dihydrolipoamide succinyltransferase (E2), and lipoamide
           dehydrogenase (E3). The E1 ortholog from Corynebacterium
           glutamicum is unusual in having an N-terminal extension
           that resembles the dihydrolipoamide succinyltransferase
           (E2) component of 2-oxoglutarate dehydrogenase [Energy
           metabolism, TCA cycle].
          Length = 929

 Score = 26.0 bits (57), Expect = 7.4
 Identities = 15/35 (42%), Positives = 18/35 (51%)

Query: 16  LRRRIENYRRHQSDCVPRYDHSFNGLVERDIQETL 50
           L   ++     Q D VP  D SF GL E D+QET 
Sbjct: 92  LHANLDPLGLKQQDKVPELDLSFYGLTEADLQETF 126


>gnl|CDD|219030 pfam06441, EHN, Epoxide hydrolase N terminus.  This family
          represents the N-terminal region of the eukaryotic
          epoxide hydrolase protein. Epoxide hydrolases
          (EC:3.3.2.3) comprise a group of functionally related
          enzymes that catalyze the addition of water to oxirane
          compounds (epoxides), thereby usually generating
          vicinal trans-diols. EHs have been found in all types
          of living organisms, including mammals, invertebrates,
          plants, fungi and bacteria. In animals, the major
          interest in EH is directed towards their detoxification
          capacity for epoxides since they are important
          safeguards against the cytotoxic and genotoxic
          potential of oxirane derivatives that are often
          reactive electrophiles because of the high tension of
          the three-membered ring system and the strong
          polarization of the C--O bonds. This is of significant
          relevance because epoxides are frequent intermediary
          metabolites which arise during the biotransformation of
          foreign compounds. This family is often found in
          conjunction with pfam00561.
          Length = 108

 Score = 25.1 bits (56), Expect = 7.4
 Identities = 5/15 (33%), Positives = 8/15 (53%)

Query: 10 QAVVDRLRRRIENYR 24
             +D L+RR+   R
Sbjct: 8  DEDLDDLKRRLALTR 22


  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
   0.319    0.133    0.390 

Gapped
Lambda     K      H
   0.267   0.0778    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,981,500
Number of extensions: 500750
Number of successful extensions: 571
Number of sequences better than 10.0: 1
Number of HSP's gapped: 571
Number of HSP's successfully gapped: 16
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 (21.8 bits)
S2: 53 (24.1 bits)