RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4674
         (173 letters)



>gnl|CDD|216250 pfam01026, TatD_DNase, TatD related DNase.  This family of proteins
           are related to a large superfamily of metalloenzymes.
           TatD, a member of this family has been shown
           experimentally to be a DNase enzyme.
          Length = 255

 Score = 38.8 bits (91), Expect = 6e-04
 Identities = 12/18 (66%), Positives = 17/18 (94%)

Query: 150 ELPMDRILVESDAPFLYP 167
           E+P+DR+LVE+DAP+L P
Sbjct: 194 EIPLDRLLVETDAPYLAP 211


>gnl|CDD|223162 COG0084, TatD, Mg-dependent DNase [DNA replication, recombination,
           and repair].
          Length = 256

 Score = 38.3 bits (90), Expect = 8e-04
 Identities = 12/18 (66%), Positives = 17/18 (94%)

Query: 150 ELPMDRILVESDAPFLYP 167
           ELP+DR+L+E+DAP+L P
Sbjct: 194 ELPLDRLLLETDAPYLAP 211


>gnl|CDD|238635 cd01310, TatD_DNAse, TatD like proteins;  E.coli TatD is a
           cytoplasmic protein, shown to have magnesium dependent
           DNase activity.
          Length = 251

 Score = 36.8 bits (86), Expect = 0.003
 Identities = 9/19 (47%), Positives = 17/19 (89%)

Query: 150 ELPMDRILVESDAPFLYPN 168
           E+P++R+L+E+D+P+L P 
Sbjct: 190 EIPLERLLLETDSPYLAPV 208


>gnl|CDD|232780 TIGR00010, TIGR00010, hydrolase, TatD family.  PSI-BLAST, starting
           with a urease alpha subunit, finds a large superfamily
           of proteins, including a number of different enzymes
           that act as hydrolases at C-N bonds other than peptide
           bonds (EC 3.5.-.-), many uncharacterized proteins, and
           the members of this family. Several genomes have
           multiple paralogs related to this family. However, a set
           of 17 proteins can be found, one each from 17 of the
           first 20 genomes, such that each member forms a
           bidirectional best hit across genomes with all other
           members of the set. This core set (and one other
           near-perfect member), but not the other paralogs, form
           the seed for this model. Additionally, members of the
           seed alignment and all trusted hits, but not all
           paralogs, have a conserved motif DxHxH near the amino
           end. The member from E. coli was recently shown to have
           DNase activity [Unknown function, Enzymes of unknown
           specificity].
          Length = 252

 Score = 35.7 bits (83), Expect = 0.006
 Identities = 9/18 (50%), Positives = 17/18 (94%)

Query: 150 ELPMDRILVESDAPFLYP 167
           ++P++R+LVE+D+P+L P
Sbjct: 190 KIPLERLLVETDSPYLAP 207


>gnl|CDD|236767 PRK10812, PRK10812, putative DNAse; Provisional.
          Length = 265

 Score = 32.4 bits (74), Expect = 0.071
 Identities = 10/17 (58%), Positives = 16/17 (94%)

Query: 151 LPMDRILVESDAPFLYP 167
           +P+DR+LVE+D+P+L P
Sbjct: 195 VPLDRLLVETDSPYLAP 211


>gnl|CDD|197394 cd10159, CsoR-like_DUF156_2, Uncharacterized family 2; belongs to a
           superfamily containing transcriptional regulators CsoR
           (copper-sensitive operon repressor), RcnR, and FrmR, and
           related domains; this family was previously known as
           part of DUF156.  Uncharacterized family 2, belonging to
           a larger superfamily that contains various
           transcriptional regulators that respond to different
           stressors such as Cu(I), Ni(I), sulfite, and
           formaldehyde, and includes CsoRs (copper-sensitive
           operon repressors). CsoRs form homotetramers (dimer of
           dimers). In Mycobacterium tuberculosis CsoR, within each
           dimer, two Cys residues on opposite subunits, along with
           a His residue, bind the Cu(I) ion (forming a triagonal
           S2N coordination complex, C-H-C). These residues are
           conserved in the majority of members of this
           superfamily, including this family, and a conserved Tyr
           and a Glu residue that facilitate allosteric regulation
           of DNA binding for CsoRs are also conserved.
          Length = 82

 Score = 29.5 bits (67), Expect = 0.23
 Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 8/57 (14%)

Query: 74  KSTNKQDLKTIRGDQITWI-----DGRETYCSNIGRLISEVDAIIMRANRMVNNGRM 125
           K    + LKT RG QI  I     + R  YC +I   I    A++ +AN+ + +  M
Sbjct: 2   KKKALRLLKTARG-QIDGIIKMIEEDR--YCIDISNQILATQALLKKANKEILSAHM 55


>gnl|CDD|182449 PRK10425, PRK10425, DNase TatD; Provisional.
          Length = 258

 Score = 30.8 bits (70), Expect = 0.25
 Identities = 9/17 (52%), Positives = 15/17 (88%)

Query: 151 LPMDRILVESDAPFLYP 167
           +P +R+L+E+DAP+L P
Sbjct: 193 IPAERLLLETDAPYLLP 209


>gnl|CDD|223063 PHA03374, PHA03374, hypothetical protein; Provisional.
          Length = 730

 Score = 30.0 bits (68), Expect = 0.61
 Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 5/26 (19%)

Query: 25  LALKGVFAFQKR-----KTKHKCASL 45
           LA +G+F F KR     K KH+CA L
Sbjct: 634 LAQEGLFDFSKRIISHSKNKHECALL 659


>gnl|CDD|219267 pfam07007, DUF1311, Protein of unknown function (DUF1311).  This
           family consists of several bacterial proteins of around
           120 residues in length. Members of this family contain
           four highly conserved cysteine residues. The function of
           this family is unknown.
          Length = 84

 Score = 27.4 bits (61), Expect = 1.3
 Identities = 9/41 (21%), Positives = 14/41 (34%)

Query: 78  KQDLKTIRGDQITWIDGRETYCSNIGRLISEVDAIIMRANR 118
                 +R  Q  W+  R+  C+    L     A + R  R
Sbjct: 38  PDAKAALRKAQRAWLKYRDAECAFEASLYEGYAACLARLTR 78


>gnl|CDD|145929 pfam03043, Herpes_UL87, Herpesvirus UL87 family.  Members of this
           family are functionally uncharacterized. This family
           groups together EBV BcRF1, HSV-6 U58, HVS-1 24 and HCMV
           UL87. The proteins range from 575 to 950 amino acids in
           length.
          Length = 533

 Score = 27.6 bits (62), Expect = 4.4
 Identities = 12/24 (50%), Positives = 14/24 (58%), Gaps = 5/24 (20%)

Query: 25  LALKGVFAFQKR-----KTKHKCA 43
           LA +GVF F K      K KH+CA
Sbjct: 448 LAQEGVFDFSKNIIAHTKIKHECA 471


>gnl|CDD|180962 PRK07403, PRK07403, glyceraldehyde-3-phosphate dehydrogenase;
           Reviewed.
          Length = 337

 Score = 26.8 bits (59), Expect = 6.9
 Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 4/32 (12%)

Query: 130 INGRTKDSSEAGLQGMLESGELPMDRILVESD 161
           +N   KD+SE  L+G+LE  +LP    LV SD
Sbjct: 259 VNEVLKDASEGPLKGILEYSDLP----LVSSD 286


  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
   0.320    0.135    0.402 

Gapped
Lambda     K      H
   0.267   0.0651    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,393,261
Number of extensions: 736919
Number of successful extensions: 552
Number of sequences better than 10.0: 1
Number of HSP's gapped: 551
Number of HSP's successfully gapped: 19
Length of query: 173
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 83
Effective length of database: 6,945,742
Effective search space: 576496586
Effective search space used: 576496586
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: 55 (25.1 bits)