RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy14868
         (209 letters)



>gnl|CDD|178104 PLN02486, PLN02486, aminoacyl-tRNA ligase.
          Length = 383

 Score = 51.7 bits (124), Expect = 6e-08
 Identities = 21/40 (52%), Positives = 28/40 (70%)

Query: 92  IIQDYTSGALLTGELKKILIDTITPIVTHHQEAMKGVTEE 131
           I ++Y SG +LTGE+KK LI+ +T IV  HQ A   VT+E
Sbjct: 332 IKKEYGSGRMLTGEVKKRLIEVLTEIVERHQRARAAVTDE 371


>gnl|CDD|237037 PRK12285, PRK12285, tryptophanyl-tRNA synthetase; Reviewed.
          Length = 368

 Score = 39.1 bits (92), Expect = 8e-04
 Identities = 14/40 (35%), Positives = 19/40 (47%)

Query: 92  IIQDYTSGALLTGELKKILIDTITPIVTHHQEAMKGVTEE 131
           I ++  SG LL GE KK   + I   +  HQE  +   E 
Sbjct: 318 IYEECRSGELLCGECKKEAAEKIAEFLKEHQEKREEAREI 357


>gnl|CDD|232888 TIGR00233, trpS, tryptophanyl-tRNA synthetase.  This model
           represents tryptophanyl-tRNA synthetase. Some members of
           the family have a pfam00458 domain amino-terminal to the
           region described by this model [Protein synthesis, tRNA
           aminoacylation].
          Length = 327

 Score = 35.8 bits (83), Expect = 0.012
 Identities = 15/40 (37%), Positives = 20/40 (50%)

Query: 92  IIQDYTSGALLTGELKKILIDTITPIVTHHQEAMKGVTEE 131
           I + Y SG L  GE KK LI+ +   +   QE    + EE
Sbjct: 258 IYEAYKSGKLGYGECKKALIEVLQEFLKEIQERRAEIAEE 297


>gnl|CDD|173903 cd00806, TrpRS_core, catalytic core domain of tryptophanyl-tRNA
           synthetase.  Tryptophanyl-tRNA synthetase (TrpRS)
           catalytic core domain. TrpRS is a homodimer which
           attaches Tyr to the appropriate tRNA. TrpRS 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 formation of the enzyme bound
           aminoacyl-adenylate. It contains class I characteristic
           HIGH and KMSKS motifs, which are involved in ATP
           binding.
          Length = 280

 Score = 34.9 bits (81), Expect = 0.019
 Identities = 11/26 (42%), Positives = 14/26 (53%)

Query: 92  IIQDYTSGALLTGELKKILIDTITPI 117
            I +Y SG L  GE KK+L + I   
Sbjct: 255 EIDEYRSGGLGYGECKKLLAEAIQEF 280


>gnl|CDD|223258 COG0180, TrpS, Tryptophanyl-tRNA synthetase [Translation, ribosomal
           structure and biogenesis].
          Length = 314

 Score = 33.7 bits (78), Expect = 0.052
 Identities = 13/40 (32%), Positives = 19/40 (47%)

Query: 92  IIQDYTSGALLTGELKKILIDTITPIVTHHQEAMKGVTEE 131
           I  +Y  G L  GE KK L + I   +   QE  + + E+
Sbjct: 261 IEAEYRGGELGCGECKKELAEAIQEFLKPIQERREELRED 300


>gnl|CDD|133160 cd06096, Plasmepsin_5, Plasmepsins are a class of aspartic
           proteinases produced by the plasmodium parasite.  The
           family contains a group of aspartic proteinases
           homologous to plasmepsin 5.  Plasmepsins are a class of
           at least 10 enzymes produced by the plasmodium parasite.
           Through their haemoglobin-degrading activity, they are
           an important cause of symptoms in malaria sufferers.
           This family of enzymes is a potential target for
           anti-malarial drugs. Plasmepsins are aspartic acid
           proteases, which means their active site contains two
           aspartic acid residues. These two aspartic acid residue
           act respectively as proton donor and proton acceptor,
           catalyzing the hydrolysis of peptide bond in proteins.
           Aspartic proteinases are 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.  There
           are four types of plasmepsins, closely related but
           varying in the specificity of cleavage site. The name
           plasmepsin may come from plasmodium (the organism) and
           pepsin (a common aspartic acid protease with similar
           molecular structure). This family of aspartate proteases
           is classified by MEROPS as the peptidase family A1
           (pepsin A, clan AA).
          Length = 326

 Score = 30.4 bits (69), Expect = 0.58
 Identities = 17/102 (16%), Positives = 35/102 (34%), Gaps = 9/102 (8%)

Query: 30  VIRILLHSKSNTTDLIISLFLGQDDLY-AVGTKASDQPLSGRPRRPDLRAYITSKITARK 88
           +I +         D I S+ L +D     +G    D  +       +  + I      RK
Sbjct: 148 IILLFTKRPKLKKDKIFSICLSEDGGELTIGGYDKDYTVRNSSIGNNKVSKIVWTPITRK 207

Query: 89  ADIIIQ-------DYTSGALLTGELKKILIDTITPIVTHHQE 123
               ++         TS +  T  L  +L+D+ + +    ++
Sbjct: 208 YYYYVKLEGLSVYGTTSNSGNTKGL-GMLVDSGSTLSHFPED 248


>gnl|CDD|237945 PRK15329, PRK15329, chaperone protein SicP; Provisional.
          Length = 138

 Score = 27.8 bits (62), Expect = 2.7
 Identities = 8/32 (25%), Positives = 18/32 (56%), Gaps = 1/32 (3%)

Query: 110 LIDTITPIVTHHQEAMKGVTEEHGKLTSSSSG 141
           ++D +   V+   EA+K   +E+ K+ + + G
Sbjct: 107 IVDQLEAFVSR-VEALKNTLQEYAKVDADARG 137


>gnl|CDD|218779 pfam05853, DUF849, Prokaryotic protein of unknown function
           (DUF849).  This family consists of several hypothetical
           prokaryotic proteins with no known function.
          Length = 273

 Score = 27.1 bits (61), Expect = 6.8
 Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 1/40 (2%)

Query: 66  PLSGRP-RRPDLRAYITSKITARKADIIIQDYTSGALLTG 104
           P  GRP + P+L   +  +I     D+II   T G +   
Sbjct: 50  PEDGRPSQDPELFREVLERIREAVPDVIINLTTGGGVGMT 89


>gnl|CDD|224545 COG1630, COG1630, NurA 5'-3' nuclease [Replication, recombination,
           and repair].
          Length = 379

 Score = 27.0 bits (60), Expect = 9.1
 Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 6/43 (13%)

Query: 68  SGRPRRPDLRAYITSKITARKADIIIQDYTSGALLTGELKKIL 110
            G P  P L+A+   +I+AR+A+III       L++  L K+ 
Sbjct: 335 DGYPI-PLLKAHEDVRISAREAEIII-----KLLISSPLLKVF 371


  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
   0.318    0.134    0.382 

Gapped
Lambda     K      H
   0.267   0.0724    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,621,734
Number of extensions: 991163
Number of successful extensions: 785
Number of sequences better than 10.0: 1
Number of HSP's gapped: 785
Number of HSP's successfully gapped: 16
Length of query: 209
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 116
Effective length of database: 6,812,680
Effective search space: 790270880
Effective search space used: 790270880
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: 57 (25.7 bits)