RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17671
         (248 letters)



>gnl|CDD|216339 pfam01167, Tub, Tub family. 
          Length = 243

 Score =  176 bits (448), Expect = 5e-55
 Identities = 72/119 (60%), Positives = 90/119 (75%), Gaps = 7/119 (5%)

Query: 87  PAAQKVSYKCRITRDRKGVDRGLYPTYFLHLERDYGKKIFLLAGRKRKKSTTSNYLISTD 146
           PA +  + +CRITRD+ G+D GL+PTY+LHLER+ GKK FLLA RKRK+S TSNYLIS D
Sbjct: 1   PAPRGGTVQCRITRDKSGMDYGLFPTYYLHLERENGKKKFLLAARKRKRSKTSNYLISLD 60

Query: 147 PTDLSRKGESFVGKLRSNLLGTQFTVYDNGSSRRRVNIFDRDEQVKV---RQELAAIIY 202
           PTDLSR G+ ++GKLRSN LGT+FTV+DNG + ++     R    KV   RQELAA+ Y
Sbjct: 61  PTDLSRSGDGYIGKLRSNFLGTKFTVFDNGVNPQK----ARLVTPKVASGRQELAAVCY 115


>gnl|CDD|192778 pfam11582, DUF3240, Protein of unknown function (DUF3240).  This
           family of proteins with unknown function appears to be
           restricted to Proteobacteria.
          Length = 101

 Score = 26.9 bits (60), Expect = 3.7
 Identities = 15/75 (20%), Positives = 27/75 (36%), Gaps = 16/75 (21%)

Query: 170 FTVYDNGSSRRRVNIFDRDEQVKVRQELAAIIYVSIKSNREFICVFVDITALLSDFFAIN 229
           FT+ +     R   +F   EQV+  +++  +         E +    D+  LL+      
Sbjct: 32  FTLLEAAGHGREHALFTIAEQVRGYRDMVKV---------EIVLPEADLERLLA------ 76

Query: 230 FHLSRIFLHWQCRHW 244
             L     H   R+W
Sbjct: 77  -ALRAANAHTPIRYW 90


>gnl|CDD|236157 PRK08126, PRK08126, hypothetical protein; Provisional.
          Length = 432

 Score = 28.1 bits (63), Expect = 4.7
 Identities = 15/25 (60%), Positives = 18/25 (72%), Gaps = 2/25 (8%)

Query: 107 RGLYPTYFLHLERDYGKKIFLLAGR 131
           RGL  T+  H ERD G+K+FLL GR
Sbjct: 144 RGLLTTF--HGERDGGEKVFLLIGR 166


>gnl|CDD|218519 pfam05239, PRC, PRC-barrel domain.  The PRC-barrel is an all beta
           barrel domain found in photosystem reaction centre
           subunit H of the purple bacteria and RNA metabolism
           proteins of the RimM group. PRC-barrels are
           approximately 80 residues long, and found widely
           represented in bacteria, archaea and plants. This domain
           is also present at the carboxyl terminus of the
           pan-bacterial protein RimM, which is involved in
           ribosomal maturation and processing of 16S rRNA. A
           family of small proteins conserved in all known
           euryarchaea are composed entirely of a single
           stand-alone copy of the domain.
          Length = 78

 Score = 26.2 bits (58), Expect = 5.7
 Identities = 15/70 (21%), Positives = 24/70 (34%), Gaps = 8/70 (11%)

Query: 66  GKKPIEMQGEVVGNLERFVLEPAAQKVSYKCRITRDRKGVDRG---LYPTYFLHLERDYG 122
           G +     GE +G ++  V++     V Y   +     G       L P  F  L    G
Sbjct: 11  GLEVYTEDGEKLGKVKDVVIDEGEGDVRY---LVVSVGGFLGSKEVLIP--FDKLNVKLG 65

Query: 123 KKIFLLAGRK 132
           K   ++   K
Sbjct: 66  KDRIIVDAPK 75


>gnl|CDD|165234 PHA02922, PHA02922, hypothetical protein; Provisional.
          Length = 153

 Score = 27.3 bits (60), Expect = 5.9
 Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 4/56 (7%)

Query: 182 VNIFDRDEQVKVRQELAAIIYV----SIKSNREFICVFVDITALLSDFFAINFHLS 233
           +  F R++ +K  +EL AII +    +I S R F   ++DI  +L      N +L+
Sbjct: 88  IKCFIRNDSMKTAKELRAIIGLCTQSAIVSGRVFNDKYIDILLMLRKILNENDYLT 143


  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
   0.324    0.140    0.420 

Gapped
Lambda     K      H
   0.267   0.0739    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,795,882
Number of extensions: 1226688
Number of successful extensions: 1127
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1126
Number of HSP's successfully gapped: 14
Length of query: 248
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 154
Effective length of database: 6,768,326
Effective search space: 1042322204
Effective search space used: 1042322204
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (26.1 bits)