RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12177
         (163 letters)



>gnl|CDD|203051 pfam04588, HIG_1_N, Hypoxia induced protein conserved region.  This
           family is found in proteins thought to be involved in
           the response to hypoxia. Family members mostly come from
           diverse eukaryotic organisms however eubacterial members
           have been identified. This region is found at the
           N-terminus of the member proteins which are predicted to
           be transmembrane.
          Length = 54

 Score = 85.3 bits (212), Expect = 6e-23
 Identities = 34/54 (62%), Positives = 42/54 (77%)

Query: 102 FKENPLVPIGCVATSAALGVGLYSMKLGDRRLSQMMMRTRVVAQGFTVLALTGG 155
            KENPLVPIGC+AT+ AL  GLY+M+ G+ ++SQ +MR RV AQGFTV AL  G
Sbjct: 1   VKENPLVPIGCLATAGALLAGLYNMRRGNSKMSQKLMRARVAAQGFTVAALVAG 54


>gnl|CDD|216003 pfam00579, tRNA-synt_1b, tRNA synthetases class I (W and Y). 
          Length = 291

 Score = 29.2 bits (66), Expect = 0.79
 Identities = 11/40 (27%), Positives = 16/40 (40%)

Query: 70  DELDWLTLQKKLQVGGYEQFTQETGTEKLIRKFKENPLVP 109
              D L L+  LQ GG +Q+        L R+F +     
Sbjct: 141 QAADILLLKADLQPGGSDQWGHIELGRDLARRFNKKVFKK 180


>gnl|CDD|205223 pfam13042, DUF3902, Protein of unknown function (DUF3902).  This
           family of proteins is functionally uncharacterized. This
           family of proteins is found in bacteria. Proteins in
           this family are approximately 170 amino acids in length.
           There is a conserved LGI sequence motif.
          Length = 161

 Score = 27.5 bits (61), Expect = 2.3
 Identities = 10/38 (26%), Positives = 23/38 (60%)

Query: 121 VGLYSMKLGDRRLSQMMMRTRVVAQGFTVLALTGGLIY 158
           + LY     D++  +++++T V++  F VL +  G+I+
Sbjct: 50  IDLYCKNTYDKKFPKVLIKTSVISFSFAVLGIIFGIIH 87


>gnl|CDD|198327 cd10294, GST_C_ValRS_N, Glutathione S-transferase C-terminal-like,
           alpha helical domain of vertebrate Valyl-tRNA
           synthetase.  Glutathione S-transferase (GST) C-terminal
           domain family, Valyl-tRNA synthetase (ValRS) subfamily;
           This model characterizes the GST_C-like domain found in
           the N-terminal region of human ValRS and its homologs
           from other vertebrates such as frog and zebrafish.
           Aminoacyl-tRNA synthetases (aaRSs) comprise a family of
           enzymes that catalyze the coupling of amino acids with
           their matching tRNAs. This involves the formation of an
           aminoacyl adenylate using ATP, followed by the transfer
           of the activated amino acid to the 3'-adenosine moiety
           of the tRNA. AaRSs may also be involved in translational
           and transcriptional regulation, as well as in tRNA
           processing. They typically form large stable complexes
           with other proteins. ValRS forms a stable complex with
           Elongation Factor-1H (EF-1H), and together, they
           catalyze consecutive steps in protein biosynthesis, tRNA
           aminoacylation and its transfer to EF. The GST_C-like
           domain of ValRS from higher eukaryotes is likely
           involved in protein-protein interactions, to mediate the
           formation of the multi-aaRS complex that acts as a
           molecular hub to coordinate protein synthesis. ValRSs
           from prokaryotes and lower eukaryotes, such as fungi and
           plants, do not appear to contain this GST_C-like domain.
          Length = 123

 Score = 27.1 bits (60), Expect = 3.0
 Identities = 10/36 (27%), Positives = 16/36 (44%)

Query: 102 FKENPLVPIGCVATSAALGVGLYSMKLGDRRLSQMM 137
           F +N L P  C A    LG+     +   R L+++ 
Sbjct: 11  FADNELTPAACAAAFPLLGLSGSDKQNQQRSLAELQ 46


>gnl|CDD|173902 cd00805, TyrRS_core, catalytic core domain of tyrosinyl-tRNA
           synthetase.  Tyrosinyl-tRNA synthetase (TyrRS) catalytic
           core domain. TyrRS is a homodimer which attaches Tyr to
           the appropriate tRNA. TyrRS is a class I tRNA
           synthetases, so it aminoacylates the 2'-OH of the
           nucleotide at the 3' end of the tRNA. The core domain is
           based on the Rossman fold and is responsible for the
           ATP-dependent formationof the enzyme bound
           aminoacyl-adenylate. It contains the class I
           characteristic HIGH and KMSKS motifs, which are involved
           in ATP binding.
          Length = 269

 Score = 27.6 bits (62), Expect = 3.0
 Identities = 13/37 (35%), Positives = 18/37 (48%)

Query: 72  LDWLTLQKKLQVGGYEQFTQETGTEKLIRKFKENPLV 108
            D++ L   LQ+GG +Q    T    LIRK     +V
Sbjct: 145 YDFVYLDVDLQLGGSDQRGNITLGRDLIRKLGYKKVV 181


>gnl|CDD|216875 pfam02102, Peptidase_M35, Deuterolysin metalloprotease (M35)
           family. 
          Length = 352

 Score = 27.2 bits (60), Expect = 3.8
 Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 2/50 (4%)

Query: 22  STTNLCNIPYPY--SQTVAPTMEEYLKTVEIKNFYTLGPVMANKITQQEQ 69
           STT  CN PY Y  S  +A T+           +Y+  P +A     Q+Q
Sbjct: 248 STTYYCNDPYGYCESNVLAYTLPSKNIIANCDIYYSYLPALAQTCHAQDQ 297


>gnl|CDD|226576 COG4091, COG4091, Predicted homoserine dehydrogenase [Amino acid
           transport and metabolism].
          Length = 438

 Score = 26.6 bits (59), Expect = 6.8
 Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 1/50 (2%)

Query: 108 VPIGCVATSAALGVGL-YSMKLGDRRLSQMMMRTRVVAQGFTVLALTGGL 156
           V IG +    A   G+ YS   GD   S M +     A GF V++   G 
Sbjct: 138 VTIGPILKQQADAAGVIYSGGAGDEPSSCMELYEFASALGFEVVSAGKGK 187


>gnl|CDD|216281 pfam01070, FMN_dh, FMN-dependent dehydrogenase. 
          Length = 302

 Score = 26.3 bits (59), Expect = 7.4
 Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 3/31 (9%)

Query: 123 LYSMKLGDRRLSQMMMRTRVVAQGFTVLALT 153
           LY  K  DR L++ ++  R  A G+  L LT
Sbjct: 116 LYVPK--DRELTEDLLE-RAEAAGYKALVLT 143


>gnl|CDD|184621 PRK14324, glmM, phosphoglucosamine mutase; Provisional.
          Length = 446

 Score = 26.5 bits (59), Expect = 7.7
 Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 4/70 (5%)

Query: 35  QTVAPTMEEYLKTVEIKNFYTLGPVMANKITQQEQDELDWLT----LQKKLQVGGYEQFT 90
           Q  A  +E   K  E  N + L P +   +  QE+  L+ +     L K+L+  G     
Sbjct: 349 QVSALMLESKKKASEALNPFELYPQLLVNLKVQEKKPLEKIKGLKELLKELEKLGIRHLI 408

Query: 91  QETGTEKLIR 100
           + +GTE  +R
Sbjct: 409 RYSGTENKLR 418


  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
   0.320    0.134    0.386 

Gapped
Lambda     K      H
   0.267   0.0644    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,016,215
Number of extensions: 706550
Number of successful extensions: 618
Number of sequences better than 10.0: 1
Number of HSP's gapped: 618
Number of HSP's successfully gapped: 20
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 (21.8 bits)
S2: 55 (25.1 bits)