RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8803
         (111 letters)



>gnl|CDD|197651 smart00320, WD40, WD40 repeats.  Note that these repeats are
          permuted with respect to the structural repeats
          (blades) of the beta propeller domain.
          Length = 40

 Score = 42.7 bits (101), Expect = 4e-07
 Identities = 15/33 (45%), Positives = 20/33 (60%)

Query: 22 VLTQHTHQVLHVSFSHNGRYFATCSKDGYILVW 54
           L  HT  V  V+FS +G+Y A+ S DG I +W
Sbjct: 7  TLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLW 39


>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat. 
          Length = 39

 Score = 42.0 bits (99), Expect = 9e-07
 Identities = 14/33 (42%), Positives = 18/33 (54%)

Query: 22 VLTQHTHQVLHVSFSHNGRYFATCSKDGYILVW 54
           L  HT  V  V+FS +G   A+ S DG + VW
Sbjct: 6  TLKGHTGPVTSVAFSPDGNLLASGSDDGTVRVW 38


>gnl|CDD|238121 cd00200, WD40, WD40 domain, found in a number of eukaryotic
           proteins that cover a wide variety of functions
           including adaptor/regulatory modules in signal
           transduction, pre-mRNA processing and cytoskeleton
           assembly; typically contains a GH dipeptide 11-24
           residues from its N-terminus and the WD dipeptide at its
           C-terminus and is 40 residues long, hence the name WD40;
           between GH and WD lies a conserved core; serves as a
           stable propeller-like platform to which proteins can
           bind either stably or reversibly; forms a propeller-like
           structure with several blades where each blade is
           composed of a four-stranded anti-parallel b-sheet;
           instances with few detectable copies are hypothesized to
           form larger structures by dimerization; each WD40
           sequence repeat forms the first three strands of one
           blade and the last strand in the next blade; the last
           C-terminal WD40 repeat completes the blade structure of
           the first WD40 repeat to create the closed ring
           propeller-structure; residues on the top and bottom
           surface of the propeller are proposed to coordinate
           interactions with other proteins and/or small ligands; 7
           copies of the repeat are present in this alignment.
          Length = 289

 Score = 39.6 bits (93), Expect = 7e-05
 Identities = 14/33 (42%), Positives = 20/33 (60%)

Query: 22  VLTQHTHQVLHVSFSHNGRYFATCSKDGYILVW 54
            L  HT  V  V+FS +G + A+ S+DG I +W
Sbjct: 130 TLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLW 162



 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 15/36 (41%), Positives = 20/36 (55%)

Query: 19  ETEVLTQHTHQVLHVSFSHNGRYFATCSKDGYILVW 54
               LT HT  V  V+FS +GR  ++ S+D  I VW
Sbjct: 85  CVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVW 120



 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 15/43 (34%), Positives = 20/43 (46%), Gaps = 1/43 (2%)

Query: 12 DYHTPIVETEVLTQHTHQVLHVSFSHNGRYFATCSKDGYILVW 54
          D  T  +    L  HT  V  V+ S +G Y A+ S D  I +W
Sbjct: 37 DLETGELLR-TLKGHTGPVRDVAASADGTYLASGSSDKTIRLW 78



 Score = 37.3 bits (87), Expect = 5e-04
 Identities = 14/33 (42%), Positives = 19/33 (57%)

Query: 22  VLTQHTHQVLHVSFSHNGRYFATCSKDGYILVW 54
            L  H + V  V+FS +G   A+ S+DG I VW
Sbjct: 214 TLRGHENGVNSVAFSPDGYLLASGSEDGTIRVW 246



 Score = 35.4 bits (82), Expect = 0.002
 Identities = 14/33 (42%), Positives = 19/33 (57%)

Query: 22  VLTQHTHQVLHVSFSHNGRYFATCSKDGYILVW 54
            LT HT +V  V+FS +G    + S DG I +W
Sbjct: 172 TLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLW 204



 Score = 33.8 bits (78), Expect = 0.009
 Identities = 16/36 (44%), Positives = 19/36 (52%)

Query: 19 ETEVLTQHTHQVLHVSFSHNGRYFATCSKDGYILVW 54
              L  HT  V  V+FS +G+  AT S DG I VW
Sbjct: 1  LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVW 36



 Score = 33.5 bits (77), Expect = 0.013
 Identities = 12/33 (36%), Positives = 21/33 (63%)

Query: 22  VLTQHTHQVLHVSFSHNGRYFATCSKDGYILVW 54
            L+ HT+ V  +++S +G+  A+ S DG I +W
Sbjct: 256 TLSGHTNSVTSLAWSPDGKRLASGSADGTIRIW 288


>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
           only].
          Length = 466

 Score = 33.1 bits (74), Expect = 0.021
 Identities = 22/95 (23%), Positives = 36/95 (37%), Gaps = 2/95 (2%)

Query: 3   SWYEEYKRLDYHTPIVETEVLTQHTHQVLHVSFSHNGRYFATCSKDGYILVWTSSYPSKV 62
           S     +  D  +       L+ H+  VL V+FS +G+  A+ S DG + +W     +  
Sbjct: 260 SSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLE--TGK 317

Query: 63  KYSHDMKTFSWKYTQYSQFNESDTLLLVSGVHFGT 97
             S               F+   +LL+  G   GT
Sbjct: 318 LLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGT 352



 Score = 32.4 bits (72), Expect = 0.033
 Identities = 19/97 (19%), Positives = 34/97 (35%)

Query: 1   KKSWYEEYKRLDYHTPIVETEVLTQHTHQVLHVSFSHNGRYFATCSKDGYILVWTSSYPS 60
                          P + + +L  H   +  ++FS +G    + S DG I +W      
Sbjct: 39  GILLLALLSDSLVSLPDLSSLLLRGHEDSITSIAFSPDGELLLSGSSDGTIKLWDLDNGE 98

Query: 61  KVKYSHDMKTFSWKYTQYSQFNESDTLLLVSGVHFGT 97
           K+  S +    S          + +++LL S    GT
Sbjct: 99  KLIKSLEGLHDSSVSKLALSSPDGNSILLASSSLDGT 135



 Score = 30.1 bits (66), Expect = 0.21
 Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 12  DYHTPIVETEVLTQHTHQVLHVSFSHNGRYFATCSKDGYILVWTSSYPSKVKYSHD 67
           D  T  +    L+ H+  V+  SFS +G   A+ S DG I +W     S +  +  
Sbjct: 227 DLSTGKLLRSTLSGHSDSVVS-SFSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLS 281



 Score = 28.9 bits (63), Expect = 0.51
 Identities = 17/73 (23%), Positives = 27/73 (36%), Gaps = 3/73 (4%)

Query: 12  DYHTPIVETEVLTQHTHQVLHVSFSHNGRYFATCS-KDGYILVWTSSYPSKVKY--SHDM 68
           D  TP      L  H+  V  ++FS +G+  A+ S  DG I +W       +     H  
Sbjct: 140 DLSTPGKLIRTLEGHSESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHTD 199

Query: 69  KTFSWKYTQYSQF 81
              S  ++     
Sbjct: 200 PVSSLAFSPDGGL 212



 Score = 27.7 bits (60), Expect = 1.3
 Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 26  HTHQVLHVSFSHNGRYFATCSKDGYILVW-TSSYPSKVKYSHDMKTFSWK 74
           HT +V  + FS +G+  A+ S D  I +W   +    V +S D K  + K
Sbjct: 411 HTSRVTSLDFSPDGKSLASGSSDNTIRLWDLKTSLKSVSFSPDGKVLASK 460



 Score = 27.4 bits (59), Expect = 1.8
 Identities = 19/75 (25%), Positives = 30/75 (40%), Gaps = 5/75 (6%)

Query: 19  ETEVLTQHTHQVLHVSFSHNGR-YFATCSKDGYILVWTSSYPSKVKYSHDMKTFSWKYTQ 77
               L  HT  V  ++FS +G    A+ S DG I +W  S    ++ +    + S     
Sbjct: 190 PLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSV---- 245

Query: 78  YSQFNESDTLLLVSG 92
            S F+   +LL    
Sbjct: 246 VSSFSPDGSLLASGS 260



 Score = 27.4 bits (59), Expect = 2.1
 Identities = 14/57 (24%), Positives = 24/57 (42%)

Query: 13  YHTPIVETEVLTQHTHQVLHVSFSHNGRYFATCSKDGYILVWTSSYPSKVKYSHDMK 69
           +     +     +    VL VSFS +GR  ++ S DG + +W  S  S ++      
Sbjct: 356 WDLRTGKPLKTLEGHSNVLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHT 412


>gnl|CDD|223130 COG0052, RpsB, Ribosomal protein S2 [Translation, ribosomal
           structure and biogenesis].
          Length = 252

 Score = 26.9 bits (60), Expect = 2.0
 Identities = 7/15 (46%), Positives = 8/15 (53%)

Query: 87  LLLVSGVHFGTPQST 101
            LL +GVHFG     
Sbjct: 8   QLLEAGVHFGHQTRR 22


>gnl|CDD|239356 cd03058, GST_N_Tau, GST_N family, Class Tau subfamily; GSTs are
          cytosolic dimeric proteins involved in cellular
          detoxification by catalyzing the conjugation of
          glutathione (GSH) with a wide range of endogenous and
          xenobiotic alkylating agents, including carcinogens,
          therapeutic drugs, environmental toxins and products of
          oxidative stress. The GST fold contains an N-terminal
          TRX-fold domain and a C-terminal alpha helical domain,
          with an active site located in a cleft between the two
          domains. The plant-specific class Tau GST subfamily has
          undergone extensive gene duplication. The Arabidopsis
          and Oryza genomes contain 28 and 40 Tau GSTs,
          respectively. They are primarily responsible for
          herbicide detoxification together with class Phi GSTs,
          showing class specificity in substrate preference. Tau
          enzymes are highly efficient in detoxifying
          diphenylether and aryloxyphenoxypropionate herbicides.
          In addition, Tau GSTs play important roles in
          intracellular signalling, biosynthesis of anthocyanin,
          responses to soil stresses and responses to auxin and
          cytokinin hormones.
          Length = 74

 Score = 26.1 bits (58), Expect = 2.1
 Identities = 12/45 (26%), Positives = 23/45 (51%)

Query: 54 WTSSYPSKVKYSHDMKTFSWKYTQYSQFNESDTLLLVSGVHFGTP 98
          W S +  +V+ +  +K   ++Y +    N+S+ LL  + VH   P
Sbjct: 7  WASPFVLRVRIALALKGVPYEYVEEDLGNKSELLLASNPVHKKIP 51


>gnl|CDD|180487 PRK06247, PRK06247, pyruvate kinase; Provisional.
          Length = 476

 Score = 27.2 bits (61), Expect = 2.1
 Identities = 9/17 (52%), Positives = 13/17 (76%)

Query: 85  DTLLLVSGVHFGTPQST 101
           D +++V+GV  GTP ST
Sbjct: 446 DRVVIVAGVPPGTPGST 462


>gnl|CDD|217864 pfam04053, Coatomer_WDAD, Coatomer WD associated region.  This
          region is composed of WD40 repeats.
          Length = 429

 Score = 26.4 bits (59), Expect = 3.8
 Identities = 10/42 (23%), Positives = 17/42 (40%), Gaps = 2/42 (4%)

Query: 32 HVSFSHNGRYFATCSKDGYILVWTSSYPSKVKYSHDMKTFSW 73
           +S + NGR+   C    YI+  T+       +   +  F W
Sbjct: 35 SLSHNPNGRFVLVCGDGEYIIY-TALAWRNKAFGSGL-DFVW 74


>gnl|CDD|238097 cd00168, SCP, SCP: SCP-like extracellular protein domain, found in
           eukaryotes and prokaryotes. This family includes plant
           pathogenesis-related protein 1 (PR-1), which accumulates
           after infections with pathogens, and may act as an
           anti-fungal agent or be involved in cell wall loosening.
           This family also includes CRISPs, mammalian
           cysteine-rich secretory proteins, which combine SCP with
           a C-terminal cysteine rich domain, and allergen 5 from
           vespid venom. Roles for CRISP, in response to pathogens,
           fertilization, and sperm maturation have been proposed.
           One member, Tex31 from the venom duct of Conus textile,
           has been shown to possess proteolytic activity sensitive
           to serine protease inhibitors. The human GAPR-1 protein
           has been reported to dimerize, and such a dimer may form
           an active site containing a catalytic triad. SCP has
           also been proposed to be a Ca++ chelating serine
           protease. The Ca++-chelating function would fit with
           various signaling processes that members of this family,
           such as the CRISPs, are involved in, and is supported by
           sequence and structural evidence of a conserved pocket
           containing two histidines and a glutamate. It also may
           explain how helothermine, a toxic peptide secreted by
           the beaded lizard, blocks Ca++ transporting ryanodine
           receptors. Little is known about the biological roles of
           the bacterial and archaeal SCP domains.
          Length = 122

 Score = 25.9 bits (57), Expect = 4.2
 Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 2/52 (3%)

Query: 2   KSWYEEYKRLDYHTPIVETEVLTQHTHQVLHVSFSHNGRYFATCSKDGYILV 53
           ++WY E K  ++  P   +   T H  QV+  + +  G   A C  + Y +V
Sbjct: 69  QAWYNEIKNYNFGQPGFSS--GTGHYTQVVWKNTTKIGCGVAFCGSNSYYVV 118


>gnl|CDD|132375 TIGR03332, salvage_mtnW,
          2,3-diketo-5-methylthiopentyl-1-phosphate enolase.
          Members of this family are the methionine salvage
          pathway enzyme
          2,3-diketo-5-methylthiopentyl-1-phosphate enolase, a
          homolog of RuBisCO. This protein family seems
          restricted to Bacillus subtilis and close relatives,
          where two separate proteins carry the enolase and
          phosphatase activities that in other species occur in a
          single protein, MtnC (TIGR01691) [Amino acid
          biosynthesis, Aspartate family, Central intermediary
          metabolism, Sulfur metabolism].
          Length = 407

 Score = 25.9 bits (57), Expect = 4.5
 Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 8/59 (13%)

Query: 14 HTPIVETEVLTQHTHQVLHVS----FSHNGRYFATCSKDGYILVWTSSYPSKVKYSHDM 68
            P+++ E L +H  +V+HV       H   Y     K   I     +YP  + +S D+
Sbjct: 34 DLPLLKQEQLKKHKGRVVHVEELAESEHTNSYLRKKVKRAII---KIAYPE-LNFSPDL 88


>gnl|CDD|223807 COG0736, AcpS, Phosphopantetheinyl transferase (holo-ACP synthase)
           [Lipid metabolism].
          Length = 127

 Score = 24.9 bits (55), Expect = 7.8
 Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 5/40 (12%)

Query: 7   EYKRLDYHTPIVE-----TEVLTQHTHQVLHVSFSHNGRY 41
           E    +   P V       + L +     +H+S SH+  Y
Sbjct: 77  EILNDELGKPTVRLSGEAAKALEKLGVANIHLSISHDRDY 116


  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
   0.317    0.129    0.401 

Gapped
Lambda     K      H
   0.267   0.0728    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,417,357
Number of extensions: 418724
Number of successful extensions: 388
Number of sequences better than 10.0: 1
Number of HSP's gapped: 387
Number of HSP's successfully gapped: 33
Length of query: 111
Length of database: 10,937,602
Length adjustment: 75
Effective length of query: 36
Effective length of database: 7,611,052
Effective search space: 273997872
Effective search space used: 273997872
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.2 bits)