RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy2358
         (417 letters)



>gnl|CDD|189721 pfam00791, ZU5, ZU5 domain.  Domain present in ZO-1 and Unc5-like
          netrin receptors Domain of unknown function.
          Length = 103

 Score = 29.1 bits (66), Expect = 1.2
 Identities = 11/23 (47%), Positives = 15/23 (65%)

Query: 32 VSPIVTIEPRRRKFHKPITLTIP 54
          +SP+V   P   KF KP+ LT+P
Sbjct: 61 LSPVVMCGPPGLKFLKPVILTVP 83


>gnl|CDD|151976 pfam11539, DUF3228, Protein of unknown function (DUF3228).  This
           family of proteins has no known function.
          Length = 196

 Score = 28.9 bits (65), Expect = 3.7
 Identities = 29/122 (23%), Positives = 47/122 (38%), Gaps = 24/122 (19%)

Query: 175 EHQEHFTEVAKSRDVEVLEG-----KSQFVE-FAG---NLVPVTKSG-DQLRLGFRAFRE 224
           E      E+ K   +++++G     K  F+E F       + +T      L+ G+ A  E
Sbjct: 29  EFVRKVNELIKVGPLKLVDGYAPFCKHLFLENFTEATCGTLEITNENEHLLKTGYEARNE 88

Query: 225 NRLPFTVR----------VKDPHADVIGRTLFMREPKVSKGEAPQQPICVSKGEAPQQPI 274
           N LP  VR          VK  + DVI   L+ RE ++ K  +        +  A    I
Sbjct: 89  NELPVLVRWFPKSSVEPQVKAKYLDVI---LYSRE-QLEKENSAMNNEPDPEINADWGII 144

Query: 275 CV 276
            +
Sbjct: 145 SI 146


>gnl|CDD|128514 smart00218, ZU5, Domain present in ZO-1 and Unc5-like netrin
          receptors.  Domain of unknown function.
          Length = 104

 Score = 27.3 bits (61), Expect = 6.5
 Identities = 8/24 (33%), Positives = 13/24 (54%)

Query: 31 AVSPIVTIEPRRRKFHKPITLTIP 54
           +SP+V   P    F +P+ L +P
Sbjct: 60 LLSPVVECGPHGALFLRPVILEVP 83


>gnl|CDD|177755 PLN00152, PLN00152, DNA-directed RNA polymerase; Provisional.
          Length = 130

 Score = 27.5 bits (61), Expect = 6.7
 Identities = 9/28 (32%), Positives = 16/28 (57%)

Query: 205 LVPVTKSGDQLRLGFRAFRENRLPFTVR 232
           +V +    D L +  +  RE ++PFT+R
Sbjct: 83  MVELEGETDPLEIAMKELRERKIPFTIR 110


>gnl|CDD|233496 TIGR01622, SF-CC1, splicing factor, CC1-like family.  This model
           represents a subfamily of RNA splicing factors including
           the Pad-1 protein (N. crassa), CAPER (M. musculus) and
           CC1.3 (H.sapiens). These proteins are characterized by
           an N-terminal arginine-rich, low complexity domain
           followed by three (or in the case of 4 H. sapiens
           paralogs, two) RNA recognition domains (rrm: pfam00706).
           These splicing factors are closely related to the U2AF
           splicing factor family (TIGR01642). A homologous gene
           from Plasmodium falciparum was identified in the course
           of the analysis of that genome at TIGR and was included
           in the seed.
          Length = 457

 Score = 28.3 bits (63), Expect = 9.3
 Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 7/50 (14%)

Query: 159 RLRVFCMTDDKEDKTLEHQEHFTEVAKSRDVEVLE----GKSQ---FVEF 201
              VF +    + +  +  E F++V K RDV+ ++     +S+   +VEF
Sbjct: 89  DRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEF 138


>gnl|CDD|130727 TIGR01666, YCCS, TIGR01666 family membrane protein.  This model
           represents a clade of sequences from gamma and beta
           proteobacteria. These proteins are >700 amino acids long
           and many have been annotated as putative membrane
           proteins. The gene from Salmonella has been annotated as
           a putative efflux transporter. The gene from E. coli has
           the name yccS [Cell envelope, Other].
          Length = 704

 Score = 28.3 bits (63), Expect = 9.6
 Identities = 13/47 (27%), Positives = 18/47 (38%)

Query: 151 KRIEQLEARLRVFCMTDDKEDKTLEHQEHFTEVAKSRDVEVLEGKSQ 197
           K ++Q    L  F     K   TLEH E   E   ++  E +E    
Sbjct: 621 KNLQQTAQFLDGFYPVAKKLIYTLEHIEEIPEAIFNQQQESIETLEL 667


  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
   0.321    0.134    0.399 

Gapped
Lambda     K      H
   0.267   0.0709    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 21,095,249
Number of extensions: 2006893
Number of successful extensions: 1397
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1397
Number of HSP's successfully gapped: 8
Length of query: 417
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 318
Effective length of database: 6,546,556
Effective search space: 2081804808
Effective search space used: 2081804808
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 (21.9 bits)
S2: 60 (26.9 bits)