RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4884
         (116 letters)



>gnl|CDD|197836 smart00704, ZnF_CDGSH, CDGSH-type zinc finger. Function unknown. 
          Length = 38

 Score = 44.6 bits (106), Expect = 8e-08
 Identities = 15/23 (65%), Positives = 19/23 (82%)

Query: 80  AICRCWKSKKFPFCDNSHKYHNK 102
           A+CRC +SK FP+CD SHK HN+
Sbjct: 15  ALCRCGRSKNFPYCDGSHKKHNE 37


>gnl|CDD|220203 pfam09360, zf-CDGSH, Iron-binding zinc finger CDGSH type.  The
          CDGSH-type zinc finger domain binds iron rather than
          zinc as a redox-active pH-labile 2Fe-2S cluster. The
          conserved sequence
          C-X-C-X2-(S/T)-X3-P-X-C-D-G-(S/A/T)-H is a defining
          feature of this family. The domain is oriented towards
          the cytoplasm and is tethered to the mitochondrial
          membrane by a more N-terminal domain found in higher
          vertebrates, MitoNEET_N, pfam10660. The domain forms a
          uniquely folded homo-dimer and spans the outer
          mitochondrial membrane, orienting the iron-binding
          residues towards the cytoplasm.
          Length = 34

 Score = 44.5 bits (106), Expect = 9e-08
 Identities = 13/19 (68%), Positives = 15/19 (78%)

Query: 80 AICRCWKSKKFPFCDNSHK 98
          A+CRC +SK  PFCD SHK
Sbjct: 16 ALCRCGRSKNQPFCDGSHK 34


>gnl|CDD|225904 COG3369, COG3369, Zinc finger domain containing protein
          (CDGSH-type) [Function unknown].
          Length = 78

 Score = 32.1 bits (73), Expect = 0.012
 Identities = 11/19 (57%), Positives = 14/19 (73%)

Query: 80 AICRCWKSKKFPFCDNSHK 98
          A+CRC  S+  PFCD +HK
Sbjct: 32 ALCRCGHSENKPFCDGTHK 50


>gnl|CDD|223416 COG0339, Dcp, Zn-dependent oligopeptidases [Amino acid transport
           and metabolism].
          Length = 683

 Score = 27.2 bits (61), Expect = 2.4
 Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 4/32 (12%)

Query: 35  PLDYENIPSE--EFWGTEPRRLINKYYSKHHD 64
           P D+  +PS+  E W  EP  L    Y++H+ 
Sbjct: 497 PWDFVELPSQFMENWCWEPEVLAK--YARHYQ 526


>gnl|CDD|180341 PRK05990, PRK05990, precorrin-2 C(20)-methyltransferase;
          Reviewed.
          Length = 241

 Score = 26.5 bits (59), Expect = 3.1
 Identities = 11/23 (47%), Positives = 14/23 (60%), Gaps = 2/23 (8%)

Query: 19 IPTCYPVEDTTEKVIGPLDYENI 41
          +P  YPV  TTE +  PL YE +
Sbjct: 59 LPLVYPV--TTEILPPPLCYETV 79


>gnl|CDD|222565 pfam14133, DUF4300, Domain of unknown function (DUF4300).  This
           family of lipoproteins is functionally uncharacterized.
           This family of proteins is found in bacteria. Proteins
           in this family are typically between 281 and 303 amino
           acids in length. There are two conserved sequence
           motifs: NCR and PYQ.
          Length = 251

 Score = 25.7 bits (57), Expect = 6.1
 Identities = 8/25 (32%), Positives = 12/25 (48%)

Query: 71  TIDTGIHTEAICRCWKSKKFPFCDN 95
           T D  +H E I + WK +   F + 
Sbjct: 143 TKDVKVHAEKIEKYWKERGISFKNE 167


>gnl|CDD|236059 PRK07580, PRK07580, Mg-protoporphyrin IX methyl transferase;
           Validated.
          Length = 230

 Score = 25.2 bits (56), Expect = 8.4
 Identities = 10/21 (47%), Positives = 11/21 (52%), Gaps = 4/21 (19%)

Query: 7   FHLVICLDLLSFIPTCYPVED 27
           F  V+CLD    I   YP ED
Sbjct: 128 FDTVVCLD--VLIH--YPQED 144


>gnl|CDD|233040 TIGR00595, priA, primosomal protein N'.  All proteins in this
           family for which functions are known are components of
           the primosome which is involved in replication, repair,
           and recombination.This family is based on the
           phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
           Stanford University) [DNA metabolism, DNA replication,
           recombination, and repair].
          Length = 505

 Score = 25.4 bits (56), Expect = 8.5
 Identities = 12/32 (37%), Positives = 13/32 (40%), Gaps = 1/32 (3%)

Query: 75  GIHTEAICR-CWKSKKFPFCDNSHKYHNKFHK 105
           G     +CR C      P CD S  YH K  K
Sbjct: 209 GYSKNLLCRSCGYILCCPNCDVSLTYHKKEGK 240


  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
   0.323    0.141    0.467 

Gapped
Lambda     K      H
   0.267   0.0713    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,792,965
Number of extensions: 486364
Number of successful extensions: 335
Number of sequences better than 10.0: 1
Number of HSP's gapped: 335
Number of HSP's successfully gapped: 13
Length of query: 116
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 37
Effective length of database: 7,433,636
Effective search space: 275044532
Effective search space used: 275044532
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.2 bits)