RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10679
         (62 letters)



>gnl|CDD|218697 pfam05694, SBP56, 56kDa selenium binding protein (SBP56).  This
           family consists of several eukaryotic selenium binding
           proteins as well as three sequences from archaea. The
           exact function of this protein is unknown although it is
           thought that SBP56 participates in late stages of
           intra-Golgi protein transport. The Lotus japonicus
           homologue of SBP56, LjSBP is thought to have more than
           one physiological role and can be implicated in
           controlling the oxidation/reduction status of target
           proteins, in vesicular Golgi transport.
          Length = 461

 Score = 95.4 bits (238), Expect = 3e-25
 Identities = 31/56 (55%), Positives = 41/56 (73%)

Query: 1   MILSGSALVKINVNTEQGGLTLDEDFIVDLGLEPNGPALAHEIRYPGGDCTSDIWL 56
            +  G  ++KI+V+ + GGL+LD +F VD G EP+GPA AHEIR PGGDC+SD W 
Sbjct: 406 GVKKGGWMLKIDVDPDNGGLSLDPNFFVDFGKEPDGPARAHEIRLPGGDCSSDSWC 461


>gnl|CDD|233696 TIGR02038, protease_degS, periplasmic serine pepetdase DegS.  This
           family consists of the periplasmic serine protease DegS
           (HhoB), a shorter paralog of protease DO (HtrA, DegP)
           and DegQ (HhoA). It is found in E. coli and several
           other Proteobacteria of the gamma subdivision. It
           contains a trypsin domain and a single copy of PDZ
           domain (in contrast to DegP with two copies). A critical
           role of this DegS is to sense stress in the periplasm
           and partially degrade an inhibitor of sigma(E) [Protein
           fate, Degradation of proteins, peptides, and
           glycopeptides, Regulatory functions, Protein
           interactions].
          Length = 351

 Score = 26.3 bits (58), Expect = 0.97
 Identities = 13/28 (46%), Positives = 15/28 (53%)

Query: 11  INVNTEQGGLTLDEDFIVDLGLEPNGPA 38
           IN    QG    D   IV  G++PNGPA
Sbjct: 264 INSVVAQGLGLPDLRGIVITGVDPNGPA 291


>gnl|CDD|226053 COG3522, COG3522, Predicted component of the type VI protein
           secretion system [Intracellular trafficking, secretion,
           and    vesicular transport].
          Length = 446

 Score = 25.0 bits (55), Expect = 3.0
 Identities = 9/20 (45%), Positives = 12/20 (60%)

Query: 8   LVKINVNTEQGGLTLDEDFI 27
           L ++      GGL+LD DFI
Sbjct: 170 LARVLEKRADGGLSLDPDFI 189


>gnl|CDD|225460 COG2908, COG2908, Uncharacterized protein conserved in bacteria
          [Function unknown].
          Length = 237

 Score = 24.9 bits (55), Expect = 3.0
 Identities = 9/16 (56%), Positives = 9/16 (56%)

Query: 26 FIVDLGLEPNGPALAH 41
          FI DL L P  PAL  
Sbjct: 2  FISDLHLGPKRPALTA 17


>gnl|CDD|226022 COG3491, PcbC, Isopenicillin N synthase and related dioxygenases
           [General function prediction only].
          Length = 322

 Score = 23.9 bits (52), Expect = 6.4
 Identities = 9/24 (37%), Positives = 12/24 (50%)

Query: 32  LEPNGPALAHEIRYPGGDCTSDIW 55
           L P  P  A+E R PG D  + + 
Sbjct: 281 LLPLCPEAANEPRGPGTDPDNPLL 304


>gnl|CDD|237937 PRK15304, PRK15304, putative fimbrial outer membrane usher protein;
           Provisional.
          Length = 801

 Score = 23.9 bits (52), Expect = 7.1
 Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 3/30 (10%)

Query: 5   GSALVKINVNTEQGGLTLDEDFIVDLGLEP 34
           GS   + +   E+G L +D+DF+   GL P
Sbjct: 74  GSLAARFD---EEGQLCVDDDFLQAAGLVP 100


>gnl|CDD|221850 pfam12915, DUF3833, Protein of unknown function (DUF3833).  This
          is a family of uncharacterized proteins found in
          Proteobacteria.
          Length = 165

 Score = 23.6 bits (52), Expect = 7.2
 Identities = 12/37 (32%), Positives = 15/37 (40%), Gaps = 8/37 (21%)

Query: 9  VKINVNTEQGGLTLDEDFIVDLG--------LEPNGP 37
          V I  + +    TLDEDF+ D G        L   G 
Sbjct: 53 VDIEGSWDGNVGTLDEDFVYDDGETQTRIWTLTKTGD 89


  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
   0.315    0.140    0.423 

Gapped
Lambda     K      H
   0.267   0.0837    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,225,762
Number of extensions: 234473
Number of successful extensions: 106
Number of sequences better than 10.0: 1
Number of HSP's gapped: 106
Number of HSP's successfully gapped: 7
Length of query: 62
Length of database: 10,937,602
Length adjustment: 33
Effective length of query: 29
Effective length of database: 9,473,920
Effective search space: 274743680
Effective search space used: 274743680
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: 42 (21.9 bits)
S2: 53 (24.0 bits)