PMID- 19440452
OWN - NLM
STAT- PubMed-not-MEDLINE
DCOM- 20110714
LR  - 20211020
IS  - 1389-2029 (Print)
IS  - 1875-5488 (Electronic)
IS  - 1389-2029 (Linking)
VI  - 9
IP  - 2
DP  - 2008 Apr
TI  - Analysis of NCL Proteins from an Evolutionary Standpoint.
PG  - 115-36
LID - 10.2174/138920208784139573 [doi]
AB  - The Neuronal Ceroid Lipofuscinoses (NCLs) are the most common group of 
      neurodegenerative disorders of childhood. While mutations in eight different 
      genes have been shown to be responsible for these clinically distinct types of 
      NCL, the NCLs share many clinical and pathological similarities. We have 
      conducted an exhaustive Basic Local Alignment Search Tool (BLAST) analysis of the 
      human protein sequences for each of the eight known NCL proteins- CLN1, CLN2, 
      CLN3, CLN5, CLN6, CLN7, CLN8 and CLN10. The number of homologous species per 
      CLN-protein identified by BLAST searches varies depending on the parameters set 
      for the BLAST search. For example, a lower threshold is able to pull up more 
      homologous sequences whereas a higher threshold decreases this number. 
      Nevertheless, the clade confines are consistent despite this variation in BLAST 
      searching parameters. Further phylogenetic analyses on the appearance of NCL 
      proteins through evolution reveals a different time line for the appearance of 
      the CLN-proteins. Moreover, divergence of each protein shows a different pattern, 
      providing important clues on the evolving role of these proteins. We present and 
      review in-depth bioinformatic analysis of the NCL proteins and classify the 
      CLN-proteins into families based on their structures and evolutionary 
      relationships, respectively. Based on these analyses, we have grouped the 
      CLN-proteins into common clades indicating a common evolving pathway within the 
      evolutionary tree of life. CLN2 is grouped in Eubacteria, CLN1 and CLN10 in 
      Viridiplantae, CLN3 in Fungi/ Metazoa, CLN7 in Bilateria and CLN5, CLN6 and CLN8 
      in Euteleostomi.
FAU - Muzaffar, Neda E
AU  - Muzaffar NE
AD  - Center for Neural Development and Disease, University of Rochester School of 
      Medicine and Dentistry, Rochester, NY 14642, USA.
FAU - Pearce, David A
AU  - Pearce DA
LA  - eng
PT  - Journal Article
PL  - United Arab Emirates
TA  - Curr Genomics
JT  - Current genomics
JID - 100960527
PMC - PMC2674804
EDAT- 2009/05/15 09:00
MHDA- 2009/05/15 09:01
PMCR- 2008/10/01
CRDT- 2009/05/15 09:00
PHST- 2008/02/06 00:00 [received]
PHST- 2008/02/18 00:00 [revised]
PHST- 2008/02/27 00:00 [accepted]
PHST- 2009/05/15 09:00 [entrez]
PHST- 2009/05/15 09:00 [pubmed]
PHST- 2009/05/15 09:01 [medline]
PHST- 2008/10/01 00:00 [pmc-release]
AID - CG-9-115 [pii]
AID - 10.2174/138920208784139573 [doi]
PST - ppublish
SO  - Curr Genomics. 2008 Apr;9(2):115-36. doi: 10.2174/138920208784139573.