RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy9337
         (156 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 = 69.7 bits (171), Expect = 6e-15
 Identities = 22/42 (52%), Positives = 33/42 (78%)

Query: 105 GKKFDLRLYVLVTSFRPLKCYLFKLGFCRFCTVKYDKNITEL 146
           G+KFD+RLYVLVTS  PL+ Y+++ G  RF +VKY  ++++L
Sbjct: 114 GRKFDIRLYVLVTSVNPLRVYVYREGLLRFASVKYSPSVSDL 155



 Score = 28.8 bits (65), Expect = 1.2
 Identities = 8/20 (40%), Positives = 11/20 (55%)

Query: 80 RMNDNQIINHFPNHYELTNT 99
              +Q +NHFP  YE+T  
Sbjct: 4  DEPYHQALNHFPGSYEITRK 23


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

 Score = 29.3 bits (67), Expect = 0.75
 Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 12/45 (26%)

Query: 16  GQQNVSLSD-------RQNKIYYCTD-----LDKSVLINNFEKRG 48
             + VSL++        Q KIYY T         S  +  F+K+G
Sbjct: 396 EGKYVSLAEYVERMKEGQKKIYYITGDSREAAKNSPHLELFKKKG 440


>gnl|CDD|213942 TIGR04329, cas1_PREFRAN, CRISPR-associated endonuclease Cas1,
           subtype PREFRAN.  Members of this family are the Cas1
           endonuclease of a novel CRISPR subtype, PREFRAN, found
           in Prevotella bryantii B14, Prevotella disiens
           FB035-09AN, Francisella tularensis subsp. novicida,
           Francisella philomiragia, Butyrivibrio proteoclasticus
           B316, Helcococcus kunzii ATCC 51366, etc.
          Length = 317

 Score = 26.6 bits (59), Expect = 6.9
 Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 1/33 (3%)

Query: 93  HYELTNTPTARRGKKFDLRLYVLVTSFRPLKCY 125
           +  +T TP   R KKF++ L ++  SFRP + +
Sbjct: 52  NISVT-TPLIERCKKFNIALVLMKPSFRPYESF 83


  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
   0.324    0.137    0.436 

Gapped
Lambda     K      H
   0.267   0.0588    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,717,895
Number of extensions: 666140
Number of successful extensions: 589
Number of sequences better than 10.0: 1
Number of HSP's gapped: 589
Number of HSP's successfully gapped: 9
Length of query: 156
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 67
Effective length of database: 6,990,096
Effective search space: 468336432
Effective search space used: 468336432
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 55 (25.3 bits)