RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy14209
         (119 letters)



>gnl|CDD|238609 cd01278, aprataxin_related, aprataxin related: Aprataxin, a HINT
           family hydrolase is mutated in ataxia oculomotor apraxia
           syndrome. All the members of this subgroup have the
           conserved HxHxHxx (where x is a hydrophobic residue)
           signature motif. Members of this subgroup are
           predominantly eukaryotic in origin.
          Length = 104

 Score = 76.3 bits (188), Expect = 2e-19
 Identities = 38/86 (44%), Positives = 48/86 (55%), Gaps = 9/86 (10%)

Query: 19  DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALVQWLE------DLSAITYLCL 72
           D+ VV F DI P A+HH LVI K+H+ + K LT E   L++ +E       L +      
Sbjct: 22  DDRVVVFKDIYPKARHHYLVIPKEHIASLKALTKEDVPLLEHMETVGREKLLRSDNTDPS 81

Query: 73  MVIFHRYGFHWPPFYSIGHLHLHVIA 98
              F   GFH PPF S+ HLHLHVIA
Sbjct: 82  EFRF---GFHAPPFTSVSHLHLHVIA 104


>gnl|CDD|221348 pfam11969, DcpS_C, Scavenger mRNA decapping enzyme C-term binding. 
           This family consists of several scavenger mRNA decapping
           enzymes (DcpS) and is the C-terminal region. DcpS is a
           scavenger pyrophosphatase that hydrolyses the residual
           cap structure following 3' to 5' decay of an mRNA. The
           association of DcpS with 3' to 5' exonuclease exosome
           components suggests that these two activities are linked
           and there is a coupled exonucleolytic decay-dependent
           decapping pathway. The C-terminal domain contains a
           histidine triad (HIT) sequence with three histidines
           separated by hydrophobic residues. The central histidine
           within the DcpS HIT motif is critical for decapping
           activity and defines the HIT motif as a new mRNA
           decapping domain, making DcpS the first member of the
           HIT family of proteins with a defined biological
           function.
          Length = 113

 Score = 71.8 bits (177), Expect = 1e-17
 Identities = 37/96 (38%), Positives = 49/96 (51%), Gaps = 6/96 (6%)

Query: 19  DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALVQWLEDLSAIT----YLCLMV 74
           D+  VAF DIKP A  H LVI K+H+ + + LT EH  L+  + +++       Y     
Sbjct: 20  DDGFVAFKDIKPKAPLHLLVIPKKHIKSLRDLTKEHLPLLGHMREVAKKIAKEKYNEGYR 79

Query: 75  IFHRYGFHWPPFYSIGHLHLHVIAPVSEMSFLSKII 110
              R GFH+ P     HLHLHVIAP  E     K+ 
Sbjct: 80  DVLRLGFHYGPSVY--HLHLHVIAPDFEPGLGRKLG 113


>gnl|CDD|238607 cd01276, PKCI_related, Protein Kinase C Interacting protein
          related (PKCI): PKCI and related proteins belong to the
          ubiquitous HIT family of hydrolases that act on
          alpha-phosphates of ribonucleotides. The members of
          this subgroup have a conserved HxHxHxx motif (x is a
          hydrophobic residue) that is a signature for this
          family. No enzymatic activity has been reported
          however, for PKCI and its related members.
          Length = 104

 Score = 45.2 bits (108), Expect = 2e-07
 Identities = 18/54 (33%), Positives = 30/54 (55%), Gaps = 8/54 (14%)

Query: 5  SKIIFKPNTWWFVTDNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALV 58
          +K +++        D++V+AF DI P A  H LVI K+H+ +    T E + L+
Sbjct: 14 AKKVYE--------DDEVLAFHDINPQAPVHILVIPKKHIASLSDATEEDEELL 59


>gnl|CDD|216377 pfam01230, HIT, HIT domain. 
          Length = 97

 Score = 40.8 bits (96), Expect = 1e-05
 Identities = 30/88 (34%), Positives = 40/88 (45%), Gaps = 14/88 (15%)

Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLT--------SEHKALVQWLEDLSAITYL 70
          D+ V+AF DI P A  H LVI K+H+     LT        SE K + + L    A  Y 
Sbjct: 12 DDLVLAFLDIDPQAPGHVLVIPKKHITELHDLTPEELGDLMSEAKKVARALGKAKADGYR 71

Query: 71 CLMVIFHRYGFHWPPFYSIGHLHLHVIA 98
           ++      G       S+ HLH+HVI 
Sbjct: 72 IVINN----GAAAGQ--SVPHLHIHVIP 93


>gnl|CDD|238608 cd01277, HINT_subgroup, HINT (histidine triad nucleotide-binding
          protein) subgroup: Members of this CD belong to the
          superfamily of histidine triad hydrolases that act on
          alpha-phosphate of ribonucleotides. This subgroup
          includes members from all three forms of cellular life.
          Although the biochemical function has not been
          characterised for many of the members of this subgroup,
          the proteins from Yeast have been shown to be involved
          in secretion, peroxisome formation and gene expression.
          Length = 103

 Score = 39.5 bits (93), Expect = 3e-05
 Identities = 17/28 (60%), Positives = 21/28 (75%)

Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLN 46
          D+ V+AF DI PA+K HTLVI K+H  N
Sbjct: 20 DDHVLAFLDINPASKGHTLVIPKKHYEN 47


>gnl|CDD|223611 COG0537, Hit, Diadenosine tetraphosphate (Ap4A) hydrolase and other
           HIT family hydrolases [Nucleotide transport and
           metabolism / Carbohydrate transport and metabolism /
           General function prediction only].
          Length = 138

 Score = 39.7 bits (93), Expect = 5e-05
 Identities = 32/105 (30%), Positives = 45/105 (42%), Gaps = 10/105 (9%)

Query: 1   MSFLSKIIFKPNTWWFVTDND-VVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALVQ 59
           M    KII        V +++ V+AF DI PAA  HTLVI K+HV +   L       + 
Sbjct: 2   MCIFCKIIRGEIPANKVYEDEHVLAFLDIYPAAPGHTLVIPKRHVSD---LEDLDPEELA 58

Query: 60  WLEDLSAITYLCLMVIFHRYGFHW------PPFYSIGHLHLHVIA 98
            L  L+      L   F   G++            + HLH+H+I 
Sbjct: 59  ELFLLAQKIAKALKEAFGADGYNIGINNGKAAGQEVFHLHIHIIP 103


>gnl|CDD|238263 cd00468, HIT_like, HIT family: HIT (Histidine triad) proteins,
          named for a motif related to the sequence HxHxH/Qxx (x,
          a hydrophobic amino acid), are a superfamily of
          nucleotide hydrolases and transferases, which act on
          the alpha-phosphate of ribonucleotides. On the basis of
          sequence, substrate specificity, structure, evolution
          and mechanism, HIT proteins are classified in the
          literacture into three major branches: the Hint branch,
          which consists of adenosine 5' -monophosphoramide
          hydrolases, the Fhit branch, that consists of
          diadenosine polyphosphate hydrolases, and the GalT
          branch consisting of specific nucloside monophosphate
          transferases. Further sequence analysis reveals several
          new closely related, yet uncharacterized subgroups.
          Length = 86

 Score = 38.6 bits (90), Expect = 6e-05
 Identities = 25/91 (27%), Positives = 36/91 (39%), Gaps = 13/91 (14%)

Query: 16 FVTDNDVVAFPDIKPAAKHHTLVISKQHVLN----AKVLTSEHKALVQ----WLEDLSAI 67
             D    AF ++KPAA  H LV  K+HV       + L ++     Q     LE    +
Sbjct: 1  VPDDEHSFAFVNLKPAAPGHVLVCPKRHVETLPDLDEALLADLVITAQRVAAELEKHGNV 60

Query: 68 TYLCLMVIFHRYGFHWPPFYSIGHLHLHVIA 98
            L + V             S+ H+HLHV+ 
Sbjct: 61 PSLTVFV-----NDGAAAGQSVPHVHLHVLP 86


>gnl|CDD|182648 PRK10687, PRK10687, purine nucleoside phosphoramidase;
          Provisional.
          Length = 119

 Score = 27.2 bits (60), Expect = 1.4
 Identities = 13/38 (34%), Positives = 19/38 (50%)

Query: 19 DNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKA 56
          D  V AF DI P A  H L+I    +     +++EH+ 
Sbjct: 23 DELVTAFRDISPQAPTHILIIPNILIPTVNDVSAEHEQ 60


>gnl|CDD|180390 PRK06082, PRK06082, 4-aminobutyrate aminotransferase; Provisional.
          Length = 459

 Score = 27.0 bits (60), Expect = 2.5
 Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 11/54 (20%)

Query: 60  WLEDLSAITYLCLMVIFHRYGFHWPPFYSIGHLHLHVIAPVSEMSFLSKIIFKP 113
           ++ED+    Y+     FH    H      +G+ H HVI  V E   ++K+ F P
Sbjct: 65  YIEDVDGKKYM----DFHGNNVH-----QLGYGHPHVIEKVKEQ--MAKLPFSP 107


>gnl|CDD|235403 PRK05318, PRK05318, deoxyguanosinetriphosphate
           triphosphohydrolase-like protein; Provisional.
          Length = 432

 Score = 26.8 bits (60), Expect = 3.2
 Identities = 16/45 (35%), Positives = 19/45 (42%), Gaps = 8/45 (17%)

Query: 47  AKVLTSEHKALVQWLEDLSAITYLCLMVIFHRYGFHWPPFYSIGH 91
           A++   +   L   L   S I  LCL    H  G H PPF   GH
Sbjct: 75  AQLKKEKQPELKPLLPSDSLIESLCLA---HDIG-H-PPF---GH 111


>gnl|CDD|224153 COG1232, HemY, Protoporphyrinogen oxidase [Coenzyme metabolism].
          Length = 444

 Score = 26.5 bits (59), Expect = 3.9
 Identities = 21/116 (18%), Positives = 34/116 (29%), Gaps = 25/116 (21%)

Query: 5   SKIIFKPNTWWFVTDNDVVAFPDIKPAAKHHTLVISKQHVLNAKVLTSEHKALVQWLEDL 64
           +KI  K      V           K  A     VIS          T+    L + L D 
Sbjct: 236 TKIDKKGAGKTIVDVGGE------KITADG---VIS----------TAPLPELARLLGDE 276

Query: 65  SAITYLCLM----VIFHRYGFHWPPFYSIGHLHLHVIAPVSEMSFLSKIIFKPNTW 116
           +       +    V+    G       ++   +  +IA   +  ++  I F  N W
Sbjct: 277 AVSKAAKELQYTSVVTVVVGLDEKDNPALPDGYGLLIA--DDDPYILAITFHSNKW 330


  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
   0.329    0.139    0.479 

Gapped
Lambda     K      H
   0.267   0.0786    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,149,493
Number of extensions: 519720
Number of successful extensions: 618
Number of sequences better than 10.0: 1
Number of HSP's gapped: 612
Number of HSP's successfully gapped: 23
Length of query: 119
Length of database: 10,937,602
Length adjustment: 82
Effective length of query: 37
Effective length of database: 7,300,574
Effective search space: 270121238
Effective search space used: 270121238
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 53 (24.1 bits)