RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6637
         (105 letters)



>gnl|CDD|239964 cd04591, CBS_pair_EriC_assoc_euk_bac, This cd contains two tandem
           repeats of the cystathionine beta-synthase (CBS pair)
           domains in the EriC CIC-type chloride channels in
           eukaryotes and bacteria. These ion channels are proteins
           with a seemingly simple task of allowing the passive
           flow of chloride ions across biological membranes.
           CIC-type chloride channels come from all kingdoms of
           life, have several gene families, and can be gated by
           voltage. The members of the CIC-type chloride channel
           are double-barreled: two proteins forming homodimers at
           a broad interface formed by four helices from each
           protein. The two pores are not found at this interface,
           but are completely contained within each subunit, as
           deduced from the mutational analyses, unlike many other
           channels, in which four or five identical or
           structurally related subunits jointly form one pore. CBS
           is a small domain originally identified in cystathionine
           beta-synthase and subsequently found in a wide range of
           different proteins. CBS domains usually come in tandem
           repeats, which associate to form a so-called Bateman
           domain or a CBS pair which is reflected in this model.
           The interface between the two CBS domains forms a cleft
           that is a potential ligand binding site. The CBS pair
           coexists with a variety of other functional domains. It
           has been proposed that the CBS domain may play a
           regulatory role, although its exact function is unknown.
           Mutations of conserved residues within this domain in
           CLC chloride channel family members have been associated
           with classic Bartter syndrome, Osteopetrosis, Dent's
           disease, idiopathic generalized epilepsy, and myotonia.
          Length = 105

 Score = 78.8 bits (195), Expect = 1e-20
 Identities = 22/50 (44%), Positives = 32/50 (64%)

Query: 24  HIDPAPFQLVERTSLLKVHSIFSLVGVNHAYVTAIGRLVGVVGLKEVRND 73
           +IDP+PF +  RTSL KVH +F  +G+ H  V   GRLVG++  K++   
Sbjct: 56  YIDPSPFTVSPRTSLEKVHQLFRKLGLRHLLVVDEGRLVGIITRKDLLKA 105


>gnl|CDD|234987 PRK01862, PRK01862, putative voltage-gated ClC-type chloride
           channel ClcB; Provisional.
          Length = 574

 Score = 32.8 bits (75), Expect = 0.020
 Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 25  IDPAPFQLVERTSLLKVHSIFSLVGVNHAYVT-AIGRLVGVVGLKEVRND 73
           I PA   +    S+  +  +F    V + YV    GR  G V LK++ +D
Sbjct: 453 IQPAQTVVPPTASVADMTRVFLEYPVKYLYVVDDDGRFRGAVALKDITSD 502


>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682).  The
           members of this family are all hypothetical eukaryotic
           proteins of unknown function. One member is described as
           being an adipocyte-specific protein, but no evidence of
           this was found.
          Length = 322

 Score = 28.0 bits (63), Expect = 0.75
 Identities = 8/13 (61%), Positives = 12/13 (92%)

Query: 1   MSPEDQKKWEEEE 13
           +SPE+Q+K EE+E
Sbjct: 303 LSPEEQRKLEEKE 315


>gnl|CDD|218436 pfam05106, Phage_holin_3, Phage holin family (Lysis protein S).
          This family represents one of a large number of
          mutually dissimilar families of phage holins. Holins
          act against the host cell membrane to allow lytic
          enzymes of the phage to reach the bacterial cell wall.
          This family includes the product of the S gene of phage
          lambda.
          Length = 100

 Score = 25.3 bits (56), Expect = 4.1
 Identities = 9/34 (26%), Positives = 15/34 (44%)

Query: 39 LKVHSIFSLVGVNHAYVTAIGRLVGVVGLKEVRN 72
          L   S   L G+  +     G  VG +G+ ++R 
Sbjct: 58 LVARSALELFGLPPSLSPFAGGAVGFLGVDKIRE 91


>gnl|CDD|225457 COG2905, COG2905, Predicted signal-transduction protein containing
           cAMP-binding and CBS domains [Signal transduction
           mechanisms].
          Length = 610

 Score = 25.8 bits (57), Expect = 4.5
 Identities = 16/84 (19%), Positives = 37/84 (44%), Gaps = 8/84 (9%)

Query: 10  EEEEMGQKVSFEQCHIDPAPFQLVERTSLLKVHSIFSLVGVNHAYVTAIGRLVGVVGLKE 69
           + +++ + ++     +D   F       L +   +     + H  VT  G+ +G++ L +
Sbjct: 212 KTQKVSEVMTSPVISVDRGDF-------LFEAMLMMLRNRIKHLPVTEDGQPLGILTLTD 264

Query: 70  V-RNDSHLSSVVIRSITMADGLGE 92
           + R  S  S V+++ I  A  + E
Sbjct: 265 ILRLFSQNSIVLVKRIARASSIEE 288


>gnl|CDD|201313 pfam00571, CBS, CBS domain.  CBS domains are small intracellular
          modules that pair together to form a stable globular
          domain. This family represents a single CBS domain.
          Pairs of these domains have been termed a Bateman
          domain. CBS domains have been shown to bind ligands
          with an adenosyl group such as AMP, ATP and S-AdoMet.
          CBS domains are found attached to a wide range of other
          protein domains suggesting that CBS domains may play a
          regulatory role making proteins sensitive to adenosyl
          carrying ligands. The region containing the CBS domains
          in Cystathionine-beta synthase is involved in
          regulation by S-AdoMet. CBS domain pairs from AMPK bind
          AMP or ATP. The CBS domains from IMPDH and the chloride
          channel CLC2 bind ATP.
          Length = 57

 Score = 23.7 bits (52), Expect = 8.8
 Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 1/40 (2%)

Query: 34 ERTSLLKVHSIFSLVGVNHAYVTAI-GRLVGVVGLKEVRN 72
            TSL +   +    G++   V    G+LVG+V L+++  
Sbjct: 14 PDTSLEEALELMRENGISRLPVVDEDGKLVGIVTLRDLLR 53


>gnl|CDD|215592 PLN03126, PLN03126, Elongation factor Tu; Provisional.
          Length = 478

 Score = 25.0 bits (54), Expect = 8.9
 Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 9/54 (16%)

Query: 27  PAPFQLVERTSLLKVHSIFSLVG--------VNHAYVTAIGRLVGVVGLKEVRN 72
           P P +  +   LL V  +FS+ G        V    V  +G  V +VGL+E R+
Sbjct: 280 PIPQRQTDLPFLLAVEDVFSITGRGTVATGRVERGTVK-VGETVDIVGLRETRS 332


  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
   0.316    0.132    0.391 

Gapped
Lambda     K      H
   0.267   0.0758    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,245,649
Number of extensions: 428919
Number of successful extensions: 312
Number of sequences better than 10.0: 1
Number of HSP's gapped: 311
Number of HSP's successfully gapped: 13
Length of query: 105
Length of database: 10,937,602
Length adjustment: 70
Effective length of query: 35
Effective length of database: 7,832,822
Effective search space: 274148770
Effective search space used: 274148770
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 (21.6 bits)
S2: 53 (24.1 bits)