RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16529
         (94 letters)



>gnl|CDD|144768 pfam01290, Thymosin, Thymosin beta-4 family. 
          Length = 41

 Score = 39.2 bits (92), Expect = 7e-06
 Identities = 21/32 (65%), Positives = 23/32 (71%)

Query: 63 IENFDTGKLKHTETVEKNPLPTKEAIDLEKKA 94
          +E FD  KLK TET EKN LPTKE I+ EK A
Sbjct: 9  VEGFDKSKLKKTETQEKNTLPTKEDIEQEKTA 40



 Score = 30.0 bits (68), Expect = 0.022
 Identities = 16/24 (66%), Positives = 18/24 (75%)

Query: 14 VEAFDTAKLKHAETQEKNPLPDKD 37
          VE FD +KLK  ETQEKN LP K+
Sbjct: 9  VEGFDKSKLKKTETQEKNTLPTKE 32


>gnl|CDD|128457 smart00152, THY, Thymosin beta actin-binding motif. 
          Length = 37

 Score = 32.6 bits (74), Expect = 0.003
 Identities = 20/35 (57%), Positives = 26/35 (74%)

Query: 60 ISGIENFDTGKLKHTETVEKNPLPTKEAIDLEKKA 94
          I  IE+FD+  LK TET+EKN LP+KE I+ EK+ 
Sbjct: 1  IDEIEHFDSENLKKTETIEKNVLPSKEDIEQEKQH 35



 Score = 28.3 bits (63), Expect = 0.10
 Identities = 14/32 (43%), Positives = 21/32 (65%)

Query: 11 IEGVEAFDTAKLKHAETQEKNPLPDKDGTKKK 42
          I+ +E FD+  LK  ET EKN LP K+  +++
Sbjct: 1  IDEIEHFDSENLKKTETIEKNVLPSKEDIEQE 32


>gnl|CDD|211333 cd02563, PseudoU_synth_TruC, tRNA pseudouridine isomerase C.
           Pseudouridine synthases catalyze the isomerization of
           specific uridines in an tRNA molecule to pseudouridines
           (5-ribosyluracil, psi).  No cofactors are required. TruC
           makes psi65 in tRNAs.  This psi residue is not
           universally conserved.
          Length = 223

 Score = 26.1 bits (58), Expect = 2.4
 Identities = 13/67 (19%), Positives = 31/67 (46%), Gaps = 1/67 (1%)

Query: 2   KAEKTHNALIEGVEAFDTAKLKHAETQEKNPLPDKDGTKKKPISKCTSYEDKKSKEKLIS 61
           +  KT+ A++ G    ++  + +  ++E + L DK  +  K     T++    + E+L  
Sbjct: 80  RVHKTYLAVVRGYVP-ESGTIDYPLSEELDKLADKFASDDKAPQAATTHYRLLAVEELPV 138

Query: 62  GIENFDT 68
            +  + T
Sbjct: 139 VVGKYPT 145


>gnl|CDD|113257 pfam04481, DUF561, Protein of unknown function (DUF561).  Protein
          of unknown function found in a cyanobacterium, and the
          chloroplasts of algae.
          Length = 243

 Score = 25.9 bits (57), Expect = 3.0
 Identities = 8/28 (28%), Positives = 15/28 (53%)

Query: 45 SKCTSYEDKKSKEKLISGIENFDTGKLK 72
          +K  S    +   K+ISG+ NF+  ++ 
Sbjct: 3  NKLHSDFANRKAIKVISGLNNFNYEQVL 30


>gnl|CDD|184920 PRK14956, PRK14956, DNA polymerase III subunits gamma and tau;
           Provisional.
          Length = 484

 Score = 26.1 bits (57), Expect = 3.5
 Identities = 16/64 (25%), Positives = 22/64 (34%), Gaps = 1/64 (1%)

Query: 29  EKNPLPDKDGTKKKPISKCTSYEDKKSKEKLISGI-ENFDTGKLKHTETVEKNPLPTKEA 87
            KN   D +  KK         E  K K+   S    N      +    ++ NPLP+K  
Sbjct: 392 SKNIPEDVEPVKKISTPPPLQQEASKKKDPTTSDQKLNSQFESNQQDSNLDNNPLPSKSE 451

Query: 88  IDLE 91
              E
Sbjct: 452 SQSE 455


>gnl|CDD|182852 PRK10938, PRK10938, putative molybdenum transport ATP-binding
           protein ModF; Provisional.
          Length = 490

 Score = 25.7 bits (57), Expect = 3.9
 Identities = 8/24 (33%), Positives = 12/24 (50%)

Query: 20  AKLKHAETQEKNPLPDKDGTKKKP 43
           A+L H+E  E   LP+ D    + 
Sbjct: 229 AQLAHSEQLEGVQLPEPDEPSARH 252


  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
   0.302    0.124    0.333 

Gapped
Lambda     K      H
   0.267   0.0599    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,503,152
Number of extensions: 352937
Number of successful extensions: 186
Number of sequences better than 10.0: 1
Number of HSP's gapped: 184
Number of HSP's successfully gapped: 26
Length of query: 94
Length of database: 10,937,602
Length adjustment: 61
Effective length of query: 33
Effective length of database: 8,232,008
Effective search space: 271656264
Effective search space used: 271656264
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 17 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.8 bits)
S2: 53 (24.5 bits)