RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8172
         (98 letters)



>gnl|CDD|128673 smart00391, MBD, Methyl-CpG binding domain.  Methyl-CpG binding
          domain, also known as the TAM (TTF-IIP5, ARBP, MeCP1)
          domain.
          Length = 77

 Score = 35.8 bits (83), Expect = 3e-04
 Identities = 12/41 (29%), Positives = 15/41 (36%), Gaps = 7/41 (17%)

Query: 37 PSNTALSSMEQVKAYLQTQGTCKCGLECPLQCDSVFSFDAK 77
          P    L S  ++  YL   G     LEC       F F+A 
Sbjct: 35 PCGKKLRSKSELARYLHKNGDLSLDLEC-------FDFNAT 68


>gnl|CDD|222727 pfam14388, DUF4419, Domain of unknown function (DUF4419).  This
           family of proteins is functionally uncharacterized. This
           family of proteins is found in bacteria, eukaryotes and
           viruses. Proteins in this family are typically between
           348 and 454 amino acids in length.
          Length = 297

 Score = 26.5 bits (59), Expect = 2.3
 Identities = 12/65 (18%), Positives = 22/65 (33%), Gaps = 13/65 (20%)

Query: 1   MFALMNSNLQPPDPKSTVL---TTTDYTSEVGFWKQTTRPSNTALSSMEQVKAYLQTQGT 57
               +  N++ P  +  +    +TT     V         S+  L  M  +K Y   +  
Sbjct: 77  FTEEIQKNIKDPSLRDLITPDFSTTTPVDRVV--------SSILL--MGTMKEYFDYKMM 126

Query: 58  CKCGL 62
             CG+
Sbjct: 127 LVCGI 131


>gnl|CDD|240302 PTZ00169, PTZ00169, ADP/ATP transporter on adenylate translocase;
          Provisional.
          Length = 300

 Score = 26.3 bits (58), Expect = 2.4
 Identities = 9/20 (45%), Positives = 15/20 (75%)

Query: 38 SNTALSSMEQVKAYLQTQGT 57
          S TA++ +E+VK  +QTQ +
Sbjct: 21 SKTAVAPIERVKMLIQTQDS 40


>gnl|CDD|173495 PTZ00256, PTZ00256, glutathione peroxidase; Provisional.
          Length = 183

 Score = 25.1 bits (55), Expect = 6.9
 Identities = 9/24 (37%), Positives = 11/24 (45%)

Query: 39 NTALSSMEQVKAYLQTQGTCKCGL 62
             LS  +  KA +     CKCGL
Sbjct: 32 LVQLSKFKGKKAIIVVNVACKCGL 55


>gnl|CDD|212680 cd10238, HSPA14-like_NBD, Nucleotide-binding domain of human HSPA14
           and similar proteins.  Human HSPA14 (also known as
           70-kDa heat shock protein 14, HSP70L1, HSP70-4; the gene
           encoding HSPA14 maps to 10p13), is ribosome-associated
           and belongs to the heat shock protein 70 (HSP70) family
           of chaperones that assist in protein folding and
           assembly, and can direct incompetent "client" proteins
           towards degradation. Typically, HSP70s have a
           nucleotide-binding domain (NBD) and a substrate-binding
           domain (SBD). The nucleotide sits in a deep cleft formed
           between the two lobes of the NBD. The two subdomains of
           each lobe change conformation between ATP-bound,
           ADP-bound, and nucleotide-free states. ATP binding opens
           up the substrate-binding site; substrate-binding
           increases the rate of ATP hydrolysis. HSP70 chaperone
           activity is regulated by various co-chaperones: J-domain
           proteins and nucleotide exchange factors (NEFs). HSPA14
           interacts with the J-protein MPP11 to form the mammalian
           ribosome-associated complex (mRAC). HSPA14 participates
           in a pathway along with Nijmegen breakage syndrome 1
           (NBS1, also known as p85 or nibrin), heat shock
           transcription factor 4b (HSF4b), and HSPA4 (belonging to
           a different subfamily), that induces tumor migration,
           invasion, and transformation. HSPA14 is a potent T
           helper cell (Th1) polarizing adjuvant that contributes
           to antitumor immune responses.
          Length = 375

 Score = 25.0 bits (55), Expect = 7.0
 Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 4/37 (10%)

Query: 31  WKQTTRPSNTAL----SSMEQVKAYLQTQGTCKCGLE 63
           WKQ  R +  A+    ++ E  K  L T  +  C +E
Sbjct: 246 WKQDVRGNARAMMKLNNAAEVAKQILSTLPSANCFVE 282


>gnl|CDD|182391 PRK10341, PRK10341, DNA-binding transcriptional activator TdcA;
           Provisional.
          Length = 312

 Score = 25.2 bits (55), Expect = 7.5
 Identities = 14/62 (22%), Positives = 19/62 (30%), Gaps = 3/62 (4%)

Query: 1   MFALMNSNLQPPDPKSTVLTTTDYTSEVGFWKQTTRPSNTALSSMEQVKAYLQTQGTCKC 60
           M +   SN     P    L    Y +    W +  R    A   +E  K Y    G  + 
Sbjct: 250 MTSPFGSNQFITIPIEETLPVAQYAA---VWSKNYRIKKAASVLVELAKEYSSYNGCRRR 306

Query: 61  GL 62
            L
Sbjct: 307 QL 308


  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
   0.314    0.127    0.387 

Gapped
Lambda     K      H
   0.267   0.0699    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,358,969
Number of extensions: 296236
Number of successful extensions: 134
Number of sequences better than 10.0: 1
Number of HSP's gapped: 134
Number of HSP's successfully gapped: 8
Length of query: 98
Length of database: 10,937,602
Length adjustment: 64
Effective length of query: 34
Effective length of database: 8,098,946
Effective search space: 275364164
Effective search space used: 275364164
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 (22.0 bits)
S2: 53 (24.3 bits)