RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5512
         (245 letters)



>gnl|CDD|225463 COG2911, COG2911, Uncharacterized protein conserved in bacteria
           [Function unknown].
          Length = 1278

 Score = 30.4 bits (69), Expect = 1.1
 Identities = 25/119 (21%), Positives = 43/119 (36%), Gaps = 11/119 (9%)

Query: 83  NIGGDVKTPNIGGDVKTTNIGGDVNTPNIG------GDVNAP-NIGGDVNAPNIGGDVKT 135
            +        +GG+    N    +  P +       G +NA  ++GG + AP +GG V  
Sbjct: 846 QVADPGGRRPLGGNPLIMNFNLALPNPLLTRGEKLSGRLNANLSLGGTLQAPQLGGQVTL 905

Query: 136 PNIGGDVNTPNIGGDVNAPNIGGDVNTPNMGGDVNTPNIGGDVSTPNIGGDVSTPNIGG 194
             I   ++  ++  D+   N    VN       ++         T N+ G VS   I  
Sbjct: 906 DGI--RIDDNSMPLDLT--NGQLRVNFAGNRSTLSGSGKLTGDGTLNLSGTVSWSQIEN 960


>gnl|CDD|185219 PRK15319, PRK15319, AIDA autotransporter-like protein ShdA;
            Provisional.
          Length = 2039

 Score = 30.1 bits (67), Expect = 1.4
 Identities = 29/62 (46%), Positives = 37/62 (59%), Gaps = 13/62 (20%)

Query: 36   GGDVNTPNIGGDVKTHVSTPNIGGDVNTPNIGGDVKTPNIGGDVKTPNIGGDVKTPNIGG 95
            GGD +TP+ GGD   +V+ P+ GGD      GG+V  P+ GGD      GGDV  P+ GG
Sbjct: 1675 GGD-DTPSDGGDDGGNVTPPDDGGD------GGNVTPPDDGGD------GGDVTPPDHGG 1721

Query: 96   DV 97
            DV
Sbjct: 1722 DV 1723



 Score = 27.4 bits (60), Expect = 8.8
 Identities = 30/68 (44%), Positives = 39/68 (57%), Gaps = 18/68 (26%)

Query: 121  GGDVNAPNIGGDVKTPNIGGDVNTPNIGGDVNAPNIGGDVNTPNMGGDVNTPNIGGDVST 180
            GGD + P+ GGD      GG+V  P+ GGD      GG+V  P+ GGD      GGDV+ 
Sbjct: 1675 GGD-DTPSDGGD-----DGGNVTPPDDGGD------GGNVTPPDDGGD------GGDVTP 1716

Query: 181  PNIGGDVS 188
            P+ GGDV+
Sbjct: 1717 PDHGGDVA 1724



 Score = 27.4 bits (60), Expect = 8.8
 Identities = 30/67 (44%), Positives = 39/67 (58%), Gaps = 18/67 (26%)

Query: 148  GGDVNAPNIGGDVNTPNMGGDVNTPNIGGDVSTPNIGGDVSTPNIGGDVNTPNIGGDVST 207
            GGD + P+ GGD      GG+V  P+ GGD      GG+V+ P+ GGD      GGDV+ 
Sbjct: 1675 GGD-DTPSDGGD-----DGGNVTPPDDGGD------GGNVTPPDDGGD------GGDVTP 1716

Query: 208  PNIGGDV 214
            P+ GGDV
Sbjct: 1717 PDHGGDV 1723


>gnl|CDD|130740 TIGR01679, bact_FAD_ox, FAD-linked oxidoreductase.  This model
           represents a family of bacterial oxidoreductases with
           covalently linked FAD, closely related to two different
           eukaryotic oxidases, L-gulonolactone oxidase (EC
           1.1.3.8) from rat and D-arabinono-1,4-lactone oxidase
           (EC 1.1.3.37) from Saccharomyces cerevisiae.
          Length = 419

 Score = 29.1 bits (65), Expect = 2.3
 Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 4/54 (7%)

Query: 55  PNIGGDVNTPNIGGDVKTPNIGGDVKTPNIGGDVKTPNI---GGDVKTTNIGGD 105
            N G D++  +IGG + T   G  V+   +   + +  +   GG V   + G D
Sbjct: 96  ENQG-DIDPQSIGGALGTATHGTGVRFQALHARIVSLRLVTAGGKVLDLSEGDD 148



 Score = 28.7 bits (64), Expect = 2.7
 Identities = 14/54 (25%), Positives = 23/54 (42%), Gaps = 4/54 (7%)

Query: 163 PNMGGDVNTPNIGGDVSTPNIGGDVSTPNIGGDVNTPNI---GGDVSTPNIGGD 213
            N G D++  +IGG + T   G  V    +   + +  +   GG V   + G D
Sbjct: 96  ENQG-DIDPQSIGGALGTATHGTGVRFQALHARIVSLRLVTAGGKVLDLSEGDD 148



 Score = 27.5 bits (61), Expect = 6.2
 Identities = 10/39 (25%), Positives = 19/39 (48%), Gaps = 1/39 (2%)

Query: 190 PNIGGDVNTPNIGGDVSTPNIGGDVKTPNIGGDVKTPKL 228
            N G D++  +IGG + T   G  V+   +   + + +L
Sbjct: 96  ENQG-DIDPQSIGGALGTATHGTGVRFQALHARIVSLRL 133


>gnl|CDD|112645 pfam03841, SelA, L-seryl-tRNA selenium transferase. 
          Length = 367

 Score = 27.7 bits (62), Expect = 5.8
 Identities = 19/72 (26%), Positives = 26/72 (36%), Gaps = 17/72 (23%)

Query: 5   LIGIGGDFNTPNIGGDVNTRNIGGDVKTTN----------IGGDVNTPNIGGDVKTHVST 54
           L+ IGG F  P+I      R +  +V TTN          I       N    +K H S 
Sbjct: 95  LVEIGGSFRIPDIMKQSGARLV--EVGTTNRTHLKDYEQAIN-----ENTALLMKVHTSN 147

Query: 55  PNIGGDVNTPNI 66
             I G     ++
Sbjct: 148 YRIQGFTKEVSL 159


  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
   0.308    0.140    0.417 

Gapped
Lambda     K      H
   0.267   0.0784    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,546,577
Number of extensions: 1233162
Number of successful extensions: 618
Number of sequences better than 10.0: 1
Number of HSP's gapped: 509
Number of HSP's successfully gapped: 44
Length of query: 245
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 151
Effective length of database: 6,768,326
Effective search space: 1022017226
Effective search space used: 1022017226
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 58 (26.0 bits)