RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10949
         (163 letters)



>gnl|CDD|202153 pfam02205, WH2, WH2 motif.  The WH2 motif (for Wiskott Aldrich
           syndrome homology region 2) has been shown in WASP and
           Scar1 (mammalian homologue) to be the region that
           interacts with actin.
          Length = 30

 Score = 27.5 bits (62), Expect = 0.46
 Identities = 11/29 (37%), Positives = 14/29 (48%)

Query: 124 ESTPRERLLEDIKKGSNHRLRHRESRPDR 152
               R  LL DI+KG   +L+  E   DR
Sbjct: 1   GGGGRGALLSDIRKGGKIQLKKVEETNDR 29


>gnl|CDD|224636 COG1722, XseB, Exonuclease VII small subunit [DNA replication,
          recombination, and repair].
          Length = 81

 Score = 28.4 bits (64), Expect = 0.49
 Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 1/36 (2%)

Query: 20 LNKVVNCAEGGLVRLWIQVLRELRRGVQLKKVCHTR 55
          L ++V   E G + L  + L+E  RG+ L K C  +
Sbjct: 19 LEEIVESLESGELPL-EEALKEFERGMALYKECQEK 53


>gnl|CDD|238524 cd01091, CDC68-like, Related to aminopeptidase P and aminopeptidase
           M, a member of this domain family is present in cell
           division control protein 68, a transcription factor.
          Length = 243

 Score = 27.7 bits (62), Expect = 2.3
 Identities = 23/88 (26%), Positives = 37/88 (42%), Gaps = 21/88 (23%)

Query: 31  LVRLWIQVLRELRRGVQLKKVCHTRNPIEYQMTPYEILMDDIRSRRYKLKQVTVDGSIPP 90
           L+ L  ++L+EL+ G +L  V             Y+  +D I+ ++ +L         P 
Sbjct: 128 LLALQEEILKELKPGAKLSDV-------------YQKTLDYIKKKKPEL--------EPN 166

Query: 91  RVKKDAHAIILEFIRSRPPLRKASDRKL 118
             K     I LEF  S   +   +DRKL
Sbjct: 167 FTKNLGFGIGLEFRESSLIINAKNDRKL 194


>gnl|CDD|236243 PRK08327, PRK08327, acetolactate synthase catalytic subunit;
           Validated.
          Length = 569

 Score = 28.0 bits (63), Expect = 2.8
 Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 10/58 (17%)

Query: 29  GGLVRLWIQVLRELRRGVQLKKVCH---------TRNPIEYQMTPYEILMDDIRSRRY 77
           GGLVR +++   E+RRG Q+ +V            + P+ Y   P E+L +++   + 
Sbjct: 136 GGLVREYVKWDYEIRRGDQIGEVVARAIQIAMSEPKGPV-YLTLPREVLAEEVPEVKA 192


>gnl|CDD|204173 pfam09231, RDV-p3, Rice dwarf virus p3.  Members of this family are
           core structural proteins found in the double-stranded
           RNA virus Phytoreovirus. They are large proteins without
           apparent domain division, with a number of all-alpha
           regions and one all beta domain near the C-terminal end.
          Length = 967

 Score = 27.6 bits (61), Expect = 3.3
 Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 7/42 (16%)

Query: 76  RYKLKQVTVDG--SIPPRVKKDAHAIILEFIRS-----RPPL 110
           ++ LK +  +G  S PP++KK      L F+ S     RPPL
Sbjct: 832 KFDLKFIKEEGEFSKPPKLKKLMFEDFLSFLDSHIGDLRPPL 873


>gnl|CDD|132329 TIGR03286, methan_mark_15, putative methanogenesis marker protein
           15.  Members of this protein family, to date, are found
           in a completed prokaryotic genome if and only if the
           species is one of the archaeal methanogens. The exact
           function is unknown, but likely is linked to
           methanogenesis or a process closely connected to it.
           Related proteins include the BadF/BadG/BcrA/BcrD ATPase
           family (pfam01869), which includes an activator for
           (R)-2-hydroxyglutaryl-CoA dehydratase [Energy
           metabolism, Methanogenesis].
          Length = 404

 Score = 27.5 bits (61), Expect = 3.8
 Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 11/56 (19%)

Query: 9   IMGSLNFQSFYLNKVVNCAEGGLVRLWIQVLRELRRGVQLKKVCHTRNP-IEYQMT 63
           + G     + ++     CAEG LVR       E+RR +Q     +T  P + Y  T
Sbjct: 67  VEGYTEADAVFIATCFRCAEGALVR------NEVRRYIQE----NTNLPVVSYSFT 112


>gnl|CDD|224030 COG1105, FruK, Fructose-1-phosphate kinase and related
           fructose-6-phosphate kinase (PfkB) [Carbohydrate
           transport and metabolism].
          Length = 310

 Score = 27.2 bits (61), Expect = 4.6
 Identities = 11/42 (26%), Positives = 23/42 (54%)

Query: 66  EILMDDIRSRRYKLKQVTVDGSIPPRVKKDAHAIILEFIRSR 107
           E  ++ +++       V + GS+PP V  DA+A ++  +R +
Sbjct: 117 EQFLEQLKALLESDDIVVLSGSLPPGVPPDAYAELIRILRQQ 158


>gnl|CDD|99740 cd00616, AHBA_syn, 3-amino-5-hydroxybenzoic acid synthase family
           (AHBA_syn). AHBA_syn family belongs to pyridoxal
           phosphate (PLP)-dependent aspartate aminotransferase
           superfamily (fold I). The members of this CD are
           involved in various biosynthetic pathways for secondary
           metabolites. Some well studied proteins in this CD are
           AHBA_synthase, protein product of pleiotropic regulatory
           gene degT,  Arnb aminotransferase and pilin
           glycosylation protein. The prototype of this family, the
           AHBA_synthase, is a dimeric PLP dependent enzyme.
           AHBA_syn is the terminal enzyme of
           3-amino-5-hydroxybenzoic acid (AHBA) formation which is
           involved in the biosynthesis of ansamycin antibiotics,
           including rifamycin B. Some members of this CD are
           involved in 4-amino-6-deoxy-monosaccharide D-perosamine
           synthesis. Perosamine is an important element in the
           glycosylation of several cell products, such as
           antibiotics and lipopolysaccharides of gram-positive and
           gram-negative bacteria. The pilin glycosylation protein
           encoded by gene pglA, is a galactosyltransferase
           involved in pilin glycosylation. Additionally, this CD
           consists of ArnB (PmrH) aminotransferase, a
           4-amino-4-deoxy-L-arabinose lipopolysaccharide-modifying
           enzyme. This CD also consists of several predicted
           pyridoxal phosphate-dependent enzymes apparently
           involved in regulation of cell wall biogenesis. The
           catalytic lysine which is present in all characterized
           PLP dependent enzymes is replaced by histidine in some
           members of this CD.
          Length = 352

 Score = 26.7 bits (60), Expect = 5.9
 Identities = 10/31 (32%), Positives = 13/31 (41%), Gaps = 4/31 (12%)

Query: 17  SFYLNKVVNCAEGGLV----RLWIQVLRELR 43
           SF+  K +   EGG V        +  R LR
Sbjct: 163 SFHPTKNLTTGEGGAVVTNDEELAERARLLR 193


>gnl|CDD|113849 pfam05094, LEF-9, Late expression factor 9 (LEF-9).  Late
           expression factor 9 (LEF-9) is one of the primary
           components of RNA polymerase produced by baculoviruses.
           LEF-9 is homologous to the largest beta-subunit of
           prokaryotic DNA-directed RNA polymerase.
          Length = 487

 Score = 26.2 bits (58), Expect = 8.3
 Identities = 14/31 (45%), Positives = 17/31 (54%), Gaps = 2/31 (6%)

Query: 6   PNYIMGSLNFQSFYLNKVVNCA-EGGLVRLW 35
           PN+I+   NF  F LNK  N   E GLV + 
Sbjct: 113 PNFILWDHNFIIF-LNKAFNSKHENGLVDIS 142


  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
   0.323    0.138    0.409 

Gapped
Lambda     K      H
   0.267   0.0572    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,693,618
Number of extensions: 815346
Number of successful extensions: 725
Number of sequences better than 10.0: 1
Number of HSP's gapped: 725
Number of HSP's successfully gapped: 18
Length of query: 163
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 74
Effective length of database: 6,990,096
Effective search space: 517267104
Effective search space used: 517267104
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: 55 (25.3 bits)