RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7886
         (115 letters)



>gnl|CDD|215285 PLN02521, PLN02521, galactokinase.
          Length = 497

 Score =  100 bits (251), Expect = 4e-26
 Identities = 40/71 (56%), Positives = 51/71 (71%), Gaps = 2/71 (2%)

Query: 3   GTQGGGMDQAIAFLASPGCAKHIQFHPLRSEDVVLPSQAVFVVAQSLATKNKAQ--SSEF 60
           GTQ GGMDQAI+ +A  G AK I F+P+R+ DV LP+   FV+A SLA  NKA   ++ +
Sbjct: 203 GTQSGGMDQAISIMAQQGVAKLIDFNPVRATDVQLPAGGTFVIANSLAESNKAVTAATNY 262

Query: 61  NTRVVECRLSA 71
           N RVVECRL+A
Sbjct: 263 NNRVVECRLAA 273


>gnl|CDD|223231 COG0153, GalK, Galactokinase [Carbohydrate transport and
           metabolism].
          Length = 390

 Score = 53.1 bits (128), Expect = 2e-09
 Identities = 21/72 (29%), Positives = 29/72 (40%), Gaps = 2/72 (2%)

Query: 2   LGTQGGGMDQAIAFLASPGCAKHIQFHPLRSEDVVLPSQAV-FVVAQSLATKNKAQSSEF 60
           +G   G MDQ  +       A  +    L  E V  P   V  V+  S   +  A  SE+
Sbjct: 169 VGVNCGIMDQLASAFGKKDHALLLDCRTLEYEPVPFPVGGVSIVIVNSNVKRELA-DSEY 227

Query: 61  NTRVVECRLSAK 72
           N R  EC  +A+
Sbjct: 228 NERRAECEEAAE 239


>gnl|CDD|232841 TIGR00131, gal_kin, galactokinase.  Galactokinase is a member of
           the GHMP kinases (Galactokinase, Homoserine kinase,
           Mevalonate kinase, Phosphomevalonate kinase) and shares
           with them an amino-terminal domain probably related to
           ATP binding.The galactokinases found by This model are
           divided into two sets. Prokaryotic forms are generally
           shorter. The eukaryotic forms are longer because of
           additional central regions and in some cases are known
           to be bifunctional, with regulatory activities that are
           independent of galactokinase activity [Energy
           metabolism, Sugars].
          Length = 386

 Score = 45.2 bits (107), Expect = 1e-06
 Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 2/72 (2%)

Query: 2   LGTQGGGMDQAIAFLASPGCAKHIQFHPLRSEDVVLPSQAV-FVVAQSLATKNKAQSSEF 60
           +G   G MDQA + L     A  ++   L++     P   + FV+A +   +  A  S +
Sbjct: 164 VGVNCGIMDQAASVLGKEDHALLVECRSLKATPFKFPQLGIAFVIANTNVKRTLA-PSNY 222

Query: 61  NTRVVECRLSAK 72
           NTR  EC  +A 
Sbjct: 223 NTRRQECTTAAN 234


>gnl|CDD|215466 PLN02865, PLN02865, galactokinase.
          Length = 423

 Score = 39.4 bits (92), Expect = 1e-04
 Identities = 20/78 (25%), Positives = 32/78 (41%), Gaps = 7/78 (8%)

Query: 2   LGTQGGGMDQAIAFLASPGCAKHIQFHPLRSEDVVLPSQAV-------FVVAQSLATKNK 54
           LG + G +DQ+   L+  GC   +    L  + V L  Q          ++A S      
Sbjct: 185 LGLRNGILDQSAILLSRYGCLTFMDCKTLDHKLVSLQFQQPGGEKPFKILLAFSGLRHAL 244

Query: 55  AQSSEFNTRVVECRLSAK 72
                +N RV EC+ +A+
Sbjct: 245 TNKPGYNLRVSECQEAAR 262


>gnl|CDD|133153 cd05486, Cathespin_E, Cathepsin E, non-lysosomal aspartic
          protease.  Cathepsin E is an intracellular,
          non-lysosomal aspartic protease expressed in a variety
          of cells and tissues. The protease has proposed
          physiological roles in antigen presentation by the MHC
          class II system, in the biogenesis of the
          vasoconstrictor peptide endothelin, and in
          neurodegeneration associated with brain ischemia and
          aging. Cathepsin E is the only A1 aspartic protease
          that exists as a homodimer with a disulfide bridge
          linking the two monomers. Like many other aspartic
          proteases, it is synthesized as a zymogen which is
          catalytically inactive towards its natural substrates
          at neutral pH and which auto-activates in an acidic
          environment. The overall structure follows the general
          fold of aspartic proteases of the A1 family, it is
          composed of two structurally similar beta barrel lobes,
          each lobe contributing an aspartic acid residue to form
          a catalytic dyad that acts to cleave the substrate
          peptide bond. The catalytic Asp residues are contained
          in an Asp-Thr-Gly-Ser/thr motif in both N- and
          C-terminal lobes of the enzyme. The aspartic acid
          residues act together to allow a water molecule to
          attack the peptide bond. One aspartic acid residue (in
          its deprotonated form) activates the attacking water
          molecule, whereas the other aspartic acid residue (in
          its protonated form) polarizes the peptide carbonyl,
          increasing its susceptibility to attack. This family of
          aspartate proteases is classified by MEROPS as the
          peptidase family A1 (pepsin A, clan AA).
          Length = 316

 Score = 26.4 bits (58), Expect = 4.3
 Identities = 9/30 (30%), Positives = 13/30 (43%)

Query: 15 FLASPGCAKHIQFHPLRSEDVVLPSQAVFV 44
          +  S  C KH +F P  S   V   +A  +
Sbjct: 31 YCTSQACTKHNRFQPSESSTYVSNGEAFSI 60


>gnl|CDD|179937 PRK05101, PRK05101, galactokinase; Provisional.
          Length = 382

 Score = 25.7 bits (57), Expect = 6.4
 Identities = 21/69 (30%), Positives = 31/69 (44%), Gaps = 7/69 (10%)

Query: 7   GGMDQAIAFLASPGCAKHIQFHPLRSEDVVLPSQAVFVVAQSLATKNKAQ---SSEFNTR 63
           G MDQ I+ L     A  I    L ++ V +P     V+  S    N  +    SE+NTR
Sbjct: 171 GIMDQLISALGKKDHALLIDCRSLETKAVPMPEGVAVVIINS----NVKRGLVDSEYNTR 226

Query: 64  VVECRLSAK 72
             +C  +A+
Sbjct: 227 RQQCETAAR 235


>gnl|CDD|147539 pfam05404, TRAP-delta, Translocon-associated protein, delta
          subunit precursor (TRAP-delta).  This family consists
          of several eukaryotic translocon-associated protein,
          delta subunit precursors (TRAP-delta or SSR-delta). The
          exact function of this protein is unknown.
          Length = 167

 Score = 25.4 bits (56), Expect = 6.6
 Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 4/36 (11%)

Query: 34 DVVLPSQAVFVVAQSLATKNKAQS----SEFNTRVV 65
          D  + S+  F+   SL   N A++    +E N ++ 
Sbjct: 34 DATISSEIAFITEFSLKCSNGAKNVSLYAEVNGKLF 69


>gnl|CDD|234400 TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa.  This
           model represents the N-terminal domain or EccCa subunit
           of the type VII secretion protein EccC as found in the
           Actinobacteria. Type VII secretion is defined more
           broadly as including secretion systems for ESAT-6-like
           proteins in the Firmicutes as well as in the
           Actinobacteria, but this family does not show close
           homologs in the Firmicutes [Protein fate, Protein and
           peptide secretion and trafficking].
          Length = 661

 Score = 25.3 bits (56), Expect = 9.2
 Identities = 6/12 (50%), Positives = 8/12 (66%)

Query: 71  AKWIPHLQTPQQ 82
            KW+PH Q P +
Sbjct: 228 LKWLPHNQHPTR 239


  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
   0.319    0.131    0.378 

Gapped
Lambda     K      H
   0.267   0.0730    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,420,512
Number of extensions: 422619
Number of successful extensions: 272
Number of sequences better than 10.0: 1
Number of HSP's gapped: 269
Number of HSP's successfully gapped: 9
Length of query: 115
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 36
Effective length of database: 7,433,636
Effective search space: 267610896
Effective search space used: 267610896
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 (21.8 bits)
S2: 53 (24.2 bits)