RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy2757
         (61 letters)



>gnl|CDD|145006 pfam01635, Corona_M, Coronavirus M matrix/glycoprotein.  This
           family consists of various coronavirus matrix proteins
           which are transmembrane glycoproteins. The M protein or
           E1 glycoprotein is The coronavirus M protein is
           implicated in virus assembly. The E1 viral membrane
           protein is required for formation of the viral envelope
           and is transported via the Golgi complex.
          Length = 221

 Score = 28.4 bits (64), Expect = 0.15
 Identities = 10/16 (62%), Positives = 12/16 (75%)

Query: 24  RLQQRTESLWSSSPET 39
           RL +RT S WS +PET
Sbjct: 99  RLFRRTRSWWSFNPET 114


>gnl|CDD|219809 pfam08368, FAST_2, FAST kinase-like protein, subdomain 2.  This
          family represents a conserved region of eukaryotic
          Fas-activated serine/threonine (FAST) kinases
          (EC:2.7.1.-) that contains several conserved leucine
          residues. FAST kinase is rapidly activated during
          Fas-mediated apoptosis, when it phosphorylates TIA-1, a
          nuclear RNA-binding protein that has been implicated as
          an effector of apoptosis. Note that many family members
          are hypothetical proteins. This subdomain is often
          found associated with the FAST kinase-like protein,
          subdomain 2.
          Length = 93

 Score = 27.3 bits (61), Expect = 0.23
 Identities = 7/37 (18%), Positives = 14/37 (37%)

Query: 14 PDYRVYELNKRLQQRTESLWSSSPETKVDESMYDCML 50
          P+Y+   L  R Q  +  +   S + K    +   + 
Sbjct: 18 PEYKGPRLPDRYQVPSFLVPLLSKKEKRMSPLQQEVK 54


>gnl|CDD|224265 COG1346, LrgB, Putative effector of murein hydrolase [Cell
          envelope biogenesis, outer membrane].
          Length = 230

 Score = 27.9 bits (63), Expect = 0.24
 Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 1/28 (3%)

Query: 7  HTPYFGQP-DYRVYELNKRLQQRTESLW 33
           +P FG       Y   KRL +RT+S +
Sbjct: 5  TSPLFGLLLTLLAYFAAKRLYKRTKSPF 32


>gnl|CDD|234012 TIGR02784, addA_alphas, double-strand break repair helicase AddA,
           alphaproteobacterial type.  AddAB, also called RexAB,
           substitutes for RecBCD in several bacterial lineages.
           These DNA recombination proteins act before synapse and
           are particularly important for DNA repair of
           double-stranded breaks by homologous recombination. The
           term AddAB is used broadly, with AddA homologous between
           the alphaproteobacteria (as modeled here) and the
           Firmicutes, while the partner AddB proteins show no
           strong homology across the two groups of species [DNA
           metabolism, DNA replication, recombination, and repair].
          Length = 1135

 Score = 25.4 bits (56), Expect = 1.7
 Identities = 12/57 (21%), Positives = 21/57 (36%), Gaps = 9/57 (15%)

Query: 8   TPYFGQPDYRVYELNKRLQQRTE-SLW-----SSSPETKVDESMYDCMLLCDELPDY 58
           +P FG  +  ++ L      R+  SLW       +        + D + L D L  +
Sbjct: 649 SPLFGLDEDDLFRLAAG---RSGGSLWAALRRREAEFAATLAVLRDWLSLADFLTPF 702


>gnl|CDD|165149 PHA02785, PHA02785, IL-beta-binding protein; Provisional.
          Length = 326

 Score = 25.0 bits (54), Expect = 2.3
 Identities = 12/29 (41%), Positives = 16/29 (55%)

Query: 22  NKRLQQRTESLWSSSPETKVDESMYDCML 50
           NKRL+QRT  + +     K D   Y C+L
Sbjct: 168 NKRLKQRTPGIITIEDVRKNDAGYYTCVL 196


>gnl|CDD|236726 PRK10618, PRK10618, phosphotransfer intermediate protein in
           two-component regulatory system with RcsBC; Provisional.
          Length = 894

 Score = 24.5 bits (54), Expect = 4.0
 Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 3/36 (8%)

Query: 11  FGQPDYRVYELNKRLQQRTESLWSSSPETKVDESMY 46
           FG  D    E+ +R+    ++LW +        SMY
Sbjct: 107 FGSHDSSTLEMTQRMSTYLDTLWGAENVP---WSMY 139


  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
   0.319    0.135    0.436 

Gapped
Lambda     K      H
   0.267   0.0728    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,112,586
Number of extensions: 200130
Number of successful extensions: 189
Number of sequences better than 10.0: 1
Number of HSP's gapped: 189
Number of HSP's successfully gapped: 6
Length of query: 61
Length of database: 10,937,602
Length adjustment: 32
Effective length of query: 29
Effective length of database: 9,518,274
Effective search space: 276029946
Effective search space used: 276029946
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: 53 (24.2 bits)