RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11712
         (123 letters)



>gnl|CDD|219277 pfam07039, DUF1325, SGF29 tudor-like domain.  This domain is found
           in the yeast protein SAGA-associated factor 29. This
           domain is related to members of the Tudor domain
           superfamily such as pfam05641. The SAGA complex is
           involved in RNA polymerase II-dependent transcriptional
           regulation. The membership of the tudor domain
           superfamily suggests this domain may bind to RNA.
          Length = 130

 Score = 91.2 bits (227), Expect = 6e-25
 Identities = 41/75 (54%), Positives = 54/75 (72%), Gaps = 2/75 (2%)

Query: 46  GDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDIDDVQKGPHQLSRKQIIPLPTKR 105
           GD VAA V+  ++ E+ WILAEV++Y++ T  YEV D D  +K  ++LSRK +IPLP K 
Sbjct: 2   GDEVAAKVKKGDE-EEEWILAEVISYSSDTNRYEVQDPDPEEKKRYKLSRKDLIPLP-KT 59

Query: 106 ANPETEPEALFPIGS 120
           ANPET P ALFP G+
Sbjct: 60  ANPETSPHALFPKGT 74


>gnl|CDD|178040 PLN02420, PLN02420, endoglucanase.
          Length = 525

 Score = 28.1 bits (62), Expect = 1.2
 Identities = 14/55 (25%), Positives = 21/55 (38%), Gaps = 11/55 (20%)

Query: 20  WVGKPGQKPAALVGAIPADPSHIANRGDMVAALVRNVEDNEDNWILAEVVNYNAS 74
           W G+    P+ LVGA+   P               N +D   N++  E   YN +
Sbjct: 454 WYGRSEPNPSVLVGALVGGPDC-----------QDNFDDRRGNYVQTEACTYNTA 497


>gnl|CDD|236126 PRK07899, rpsA, 30S ribosomal protein S1; Reviewed.
          Length = 486

 Score = 27.7 bits (62), Expect = 1.9
 Identities = 16/42 (38%), Positives = 19/42 (45%), Gaps = 9/42 (21%)

Query: 33  GAIPA---------DPSHIANRGDMVAALVRNVEDNEDNWIL 65
           G IP+         DP+ +   GD V ALV   ED E   IL
Sbjct: 61  GVIPSRELSIKHDVDPNEVVEVGDEVEALVLQKEDKEGRLIL 102


>gnl|CDD|176680 cd07257, THT_oxygenase_C, The C-terminal domain of
          2,4,5-Trihydroxytoluene (THT) oxygenase, which is an
          extradiol dioxygenease in the 2,4-dinitrotoluene (DNT)
          degradation pathway.  This subfamily contains the
          C-terminal, catalytic, domain of THT oxygenase. THT
          oxygenase is an extradiol dioxygenase in the
          2,4-dinitrotoluene (DNT) degradation pathway. It
          catalyzes the conversion of 2,4,5-trihydroxytoluene to
          an unstable ring fission product,
          2,4-dihydroxy-5-methyl-6-oxo-2,4-hexadienoic acid. The
          native protein was determined to be a dimer by gel
          filtration. The enzyme belongs to the type I family of
          extradiol dioxygenases which contains two structurally
          homologous barrel-shaped domains at the N- and
          C-terminus of each monomer. The active-site metal is
          located in the C-terminal barrel. Fe(II) is required
          for its catalytic activity.
          Length = 153

 Score = 26.1 bits (58), Expect = 4.7
 Identities = 16/72 (22%), Positives = 26/72 (36%), Gaps = 12/72 (16%)

Query: 33 GAIPADPSHIANRGDMVAALVRNVEDNEDNW--------ILAEVVNYNASTRTYEVIDID 84
          G  P+D  ++   G+ VAA +R   D  + +                + +   +EV D D
Sbjct: 24 GLKPSDVIYLPGPGNPVAAFLR--LDRGEEYVDHHTLALAQGPESGVHHAA--FEVHDFD 79

Query: 85 DVQKGPHQLSRK 96
              G   L  K
Sbjct: 80 AQGLGHDYLREK 91


>gnl|CDD|132435 TIGR03394, indol_phenyl_DC, indolepyruvate/phenylpyruvate
           decarboxylase, Azospirillum family.  A family of closely
           related, thiamine pyrophosphate-dependent enzymes
           includes indolepyruvate decarboxylase (EC 4.1.1.74),
           phenylpyruvate decarboxylase (EC 4.1.1.43), pyruvate
           decarboxylase (EC 4.1.1.1), branched-chain
           alpha-ketoacid decarboxylase, etc.. Members of this
           group of homologs may overlap in specificity. This model
           represents a clade that includes a Azospirillum
           brasilense member active as both phenylpyruvate
           decarboxylase and indolepyruvate decarboxylase.
          Length = 535

 Score = 26.0 bits (57), Expect = 5.8
 Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 1/45 (2%)

Query: 14  AHTLPLWVGKPGQKPAALVGAIPADPSHIANRGDMVAALVRNVED 58
             + P+++  P     A V  +P DP+   +R D + A    V  
Sbjct: 153 ELSRPVYLEIPRDMVNAEVEPVPDDPAWPVDR-DALDACADEVLA 196


>gnl|CDD|164910 PHA02335, PHA02335, hypothetical protein.
          Length = 118

 Score = 24.8 bits (54), Expect = 9.2
 Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 1/29 (3%)

Query: 57 EDNEDNWILAEVVNY-NASTRTYEVIDID 84
          E NE N++L  + NY N  + TY+  + D
Sbjct: 5  ELNEGNYMLFAIKNYNNPQSVTYDDFEED 33


>gnl|CDD|234528 TIGR04264, hyperosmo_Ebh, hyperosmolarity resistance protein Ebh,
           N-terminal domain.  Staphylococcal protein Ebh
           (extracellular matrix-binding protein homolog) is a
           giant protein, sometimes over 10,000 amino acids long as
           reported. This model describes a non-repetitive
           amino-terminal domain of about 2400 amino acids.
          Length = 2354

 Score = 25.6 bits (56), Expect = 9.3
 Identities = 9/19 (47%), Positives = 11/19 (57%)

Query: 22  GKPGQKPAALVGAIPADPS 40
           GK GQKP   V  +P D +
Sbjct: 632 GKGGQKPTITVTNVPQDTN 650


  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
   0.314    0.131    0.386 

Gapped
Lambda     K      H
   0.267   0.0733    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,312,268
Number of extensions: 542948
Number of successful extensions: 384
Number of sequences better than 10.0: 1
Number of HSP's gapped: 382
Number of HSP's successfully gapped: 17
Length of query: 123
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 38
Effective length of database: 7,167,512
Effective search space: 272365456
Effective search space used: 272365456
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.2 bits)