RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy9336
         (99 letters)



>gnl|CDD|217380 pfam03133, TTL, Tubulin-tyrosine ligase family.  Tubulins and
          microtubules are subjected to several
          post-translational modifications of which the
          reversible detyrosination/tyrosination of the
          carboxy-terminal end of most alpha-tubulins has been
          extensively analysed. This modification cycle involves
          a specific carboxypeptidase and the activity of the
          tubulin-tyrosine ligase (TTL). The true physiological
          function of TTL has so far not been established.
          Tubulin-tyrosine ligase (TTL) catalyzes the
          ATP-dependent post-translational addition of a tyrosine
          to the carboxy terminal end of detyrosinated
          alpha-tubulin. In normally cycling cells, the
          tyrosinated form of tubulin predominates. However, in
          breast cancer cells, the detyrosinated form frequently
          predominates, with a correlation to tumour
          aggressiveness. On the other hand, 3-nitrotyrosine has
          been shown to be incorporated, by TTL, into the carboxy
          terminal end of detyrosinated alpha-tubulin. This
          reaction is not reversible by the carboxypeptidase
          enzyme. Cells cultured in 3-nitrotyrosine rich medium
          showed evidence of altered microtubule structure and
          function, including altered cell morphology, epithelial
          barrier dysfunction, and apoptosis. Bacterial homologs
          of TTL are predicted to form peptide tags. Some of
          these are fused to a 2-oxoglutarate Fe(II)-dependent
          dioxygenase domain.
          Length = 291

 Score = 28.1 bits (63), Expect = 0.70
 Identities = 8/19 (42%), Positives = 11/19 (57%)

Query: 80 RMNDNQIINHFPNHYELTN 98
              +Q +NHFP  YE+T 
Sbjct: 4  DEPYHQALNHFPGSYEITR 22


>gnl|CDD|235366 PRK05218, PRK05218, heat shock protein 90; Provisional.
          Length = 613

 Score = 27.8 bits (63), Expect = 0.88
 Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 5/30 (16%)

Query: 24  DRQNKIYYCTD-----LDKSVLINNFEKRG 48
           + Q KIYY T         S  +  F+K+G
Sbjct: 411 EGQKKIYYITGDSREAAKNSPHLELFKKKG 440


>gnl|CDD|236335 PRK08724, fliD, flagellar capping protein; Validated.
          Length = 673

 Score = 26.4 bits (58), Expect = 2.7
 Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 1/26 (3%)

Query: 65  GIQTCRNIFSLELGYRMNDNQIINHF 90
           GI T R   +LE+ Y M D Q+ N+F
Sbjct: 560 GITTTRQ-GTLEINYDMLDRQLNNNF 584


  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    0.428 

Gapped
Lambda     K      H
   0.267   0.0722    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,776,327
Number of extensions: 371664
Number of successful extensions: 272
Number of sequences better than 10.0: 1
Number of HSP's gapped: 272
Number of HSP's successfully gapped: 4
Length of query: 99
Length of database: 10,937,602
Length adjustment: 65
Effective length of query: 34
Effective length of database: 8,054,592
Effective search space: 273856128
Effective search space used: 273856128
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: 53 (24.2 bits)