RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10072
         (84 letters)



>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain. 
          Length = 26

 Score = 32.4 bits (74), Expect = 0.002
 Identities = 14/25 (56%), Positives = 18/25 (72%)

Query: 1  MRNHIRTHTGEKPYKCTFCPFTAAH 25
          +R H+RTHTGEKPYKC  C  + + 
Sbjct: 2  LRRHMRTHTGEKPYKCPVCGKSFSS 26


>gnl|CDD|213191 cd03224, ABC_TM1139_LivF_branched, ATP-binding cassette domain of
           branched-chain amino acid transporter.  LivF (TM1139) is
           part of the LIV-I bacterial ABC-type two-component
           transport system that imports neutral, branched-chain
           amino acids. The E. coli branched-chain amino acid
           transporter comprises a heterodimer of ABC transporters
           (LivF and LivG), a heterodimer of six-helix TM domains
           (LivM and LivH), and one of two alternative soluble
           periplasmic substrate binding proteins (LivK or LivJ).
           ABC transporters are a large family of proteins involved
           in the transport of a wide variety of different
           compounds, like sugars, ions, peptides, and more complex
           organic molecules.
          Length = 222

 Score = 27.0 bits (61), Expect = 1.1
 Identities = 10/21 (47%), Positives = 10/21 (47%), Gaps = 1/21 (4%)

Query: 61  ERRHMPGDVL-GHIQQMLEIG 80
           ERR      L G  QQML I 
Sbjct: 124 ERRKQLAGTLSGGEQQMLAIA 144


>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
          only].
          Length = 467

 Score = 26.6 bits (58), Expect = 1.7
 Identities = 11/30 (36%), Positives = 17/30 (56%)

Query: 3  NHIRTHTGEKPYKCTFCPFTAAHSSTMSYH 32
           HIR+HTGEKP +C++     + S  +   
Sbjct: 51 RHIRSHTGEKPSQCSYSGCDKSFSRPLELS 80


>gnl|CDD|203088 pfam04780, DUF629, Protein of unknown function (DUF629).  This
          family represents a region of several plant proteins of
          unknown function. A C2H2 zinc finger is predicted in
          this region in some family members, but the spacing
          between the cysteine residues is not conserved
          throughout the family.
          Length = 463

 Score = 26.2 bits (58), Expect = 2.1
 Identities = 6/26 (23%), Positives = 11/26 (42%)

Query: 42 KCPHCAYKCVKQKDLNTHIERRHMPG 67
           C  C+ K    ++   H+E+ H   
Sbjct: 59 MCRTCSKKFSSSEECKNHLEQEHAAK 84


>gnl|CDD|223974 COG1044, LpxD, UDP-3-O-[3-hydroxymyristoyl].
          Length = 338

 Score = 25.3 bits (56), Expect = 3.9
 Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 3/29 (10%)

Query: 57  NTHIERRHMPGDVLG---HIQQMLEIGHN 82
           NT I+R  +   V+G    I  +++IGHN
Sbjct: 214 NTTIDRGALDDTVIGEGVKIDNLVQIGHN 242


>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
          Length = 128

 Score = 25.2 bits (55), Expect = 4.2
 Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 1/52 (1%)

Query: 13  PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCVKQKDLNTHIERRH 64
           PY C  C    + S ++  H+R  +  KV CP C  +         H+ ++H
Sbjct: 73  PYVCPLCLMPFSSSVSLKQHIRYTEHSKV-CPVCGKEFRNTDSTLDHVCKKH 123


>gnl|CDD|221428 pfam12115, Salp15, Salivary protein of 15kDa inhibits CD4+ T cell
          activation.  This is a family of 15kDa salivary
          proteins from Acari Arachnids that is induced on
          feeding and assists the parasite to remain attached to
          its arthropod host. By repressing calcium fluxes
          triggered by TCR engagement, Salp15 inhibits CD4+ T
          cell activation. Salp15 shows weak similarity to
          Inhibin A, a member of the TGF-beta superfamily that
          inhibits the production of cytokines and the
          proliferation of T cells.
          Length = 112

 Score = 25.0 bits (55), Expect = 4.3
 Identities = 9/30 (30%), Positives = 14/30 (46%)

Query: 37 QDLKVKCPHCAYKCVKQKDLNTHIERRHMP 66
           D  V   +C + C K  +  T+I  R +P
Sbjct: 59 NDKLVDFKNCTFTCGKHNNGGTNITLRQLP 88


>gnl|CDD|179392 PRK02249, PRK02249, DNA primase large subunit; Validated.
          Length = 343

 Score = 25.3 bits (56), Expect = 4.3
 Identities = 11/37 (29%), Positives = 14/37 (37%), Gaps = 8/37 (21%)

Query: 3   NHIRTHTGEKPYKCTFCPFTAAHSSTM-SYHLRIHQD 38
            HI   TG   Y    C        TM +Y L + +D
Sbjct: 281 EHIAGETGGTEYTPPSC-------ETMRTYGLCVGKD 310


>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger. 
          Length = 23

 Score = 23.2 bits (50), Expect = 6.1
 Identities = 7/23 (30%), Positives = 10/23 (43%)

Query: 14 YKCTFCPFTAAHSSTMSYHLRIH 36
          Y+C  C       S +  H+R H
Sbjct: 1  YRCPECGKVFKSKSALREHMRTH 23


>gnl|CDD|216094 pfam00747, Viral_DNA_bp, ssDNA binding protein.  This protein is
           found in herpesviruses and is needed for replication.
          Length = 1111

 Score = 24.6 bits (54), Expect = 7.5
 Identities = 12/37 (32%), Positives = 14/37 (37%), Gaps = 8/37 (21%)

Query: 13  PYKCTFCPFTAAHSSTMSY---HLRIHQDLKVKCPHC 46
           PY   FCP       T  Y    L + QDL +   H 
Sbjct: 634 PYAQAFCPIL-----TFLYYRSVLAVLQDLALIQCHG 665


  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    0.135    0.450 

Gapped
Lambda     K      H
   0.267   0.0804    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,923,208
Number of extensions: 273627
Number of successful extensions: 442
Number of sequences better than 10.0: 1
Number of HSP's gapped: 441
Number of HSP's successfully gapped: 27
Length of query: 84
Length of database: 10,937,602
Length adjustment: 52
Effective length of query: 32
Effective length of database: 8,631,194
Effective search space: 276198208
Effective search space used: 276198208
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.1 bits)