Evolution for haloacid dehalogenase-like hydrolase domain containing 2: Difference between revisions

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Revision as of 04:54, 5 June 2007

Methods


BLAST searches with the whole nucleotide alignment was run for the human HDHD2 and also another for the first 100 nucleotides for conserved sequences. CLUSTALX and PHYLIP was used to contruct phyologenetic trees for determination of conservation and to aid in study of function.


Results



Whole sequence alignment 

                                                                Score    E
Sequences producing significant alignments:                      (bits) Value

gb|AAH58177.1| Haloacid dehalogenase-like hydrolase domain conta...   462   e-128
ref|NP_084102.1| haloacid dehalogenase-like hydrolase domain con...   462   e-128
dbj|BAE28142.1| unnamed protein product [Mus musculus]                460   e-128
pdb|2HO4|A Chain A, Crystal Structure Of Protein From Mouse Mm.2...   453   e-126
ref|NP_001014173.1| hypothetical protein LOC361351 [Rattus norve...   446   e-124
ref|XP_537270.1| PREDICTED: similar to haloacid dehalogenase-lik...   437   e-121
ref|NP_001030194.1| haloacid dehalogenase-like hydrolase domain ...   426   e-118
ref|XP_001148863.1| PREDICTED: haloacid dehalogenase-like hydrol...   424   e-117
emb|CAH93402.1| hypothetical protein [Pongo pygmaeus]                 424   e-117
ref|NP_115500.1| haloacid dehalogenase-like hydrolase domain con...   421   e-116
ref|XP_001086150.1| PREDICTED: similar to haloacid dehalogenase-...   418   e-115
ref|XP_001086254.1| PREDICTED: similar to haloacid dehalogenase-...   413   e-114
dbj|BAB22395.1| unnamed protein product [Mus musculus]                410   e-113
ref|XP_414700.2| PREDICTED: hypothetical protein [Gallus gallus]      390   e-107
gb|AAS66213.1| LRRG00122 [Rattus norvegicus]                          389   e-107
ref|NP_001013491.1| hypothetical protein LOC541346 [Danio rerio]...   371   e-101



Phylogenetic tree from CLUSTALX


Tree.jpg




BLAST for first 100 amino acids 

   Score     E
Sequences producing significant alignments:                       (Bits)  Value

gi|114794442|pdb|2HO4|A  Chain A, Crystal Structure Of Protein...   175    8e-43 
gi|34849757|gb|AAH58177.1|  Haloacid dehalogenase-like hydrola...   174    2e-42 
gi|21313310|ref|NP_084102.1|  haloacid dehalogenase-like hydro...   172    4e-42 
gi|74190684|dbj|BAE28142.1|  unnamed protein product [Mus musculu   172    4e-42 
gi|78042510|ref|NP_001030194.1|  haloacid dehalogenase-like hy...   167    1e-40 
gi|57089151|ref|XP_537270.1|  PREDICTED: similar to haloacid d...   167    1e-40 
gi|12833114|dbj|BAB22395.1|  unnamed protein product [Mus musculu   167    2e-40 
gi|75040931|sp|Q5R4B4|HDHD2_PONPY  Haloacid dehalogenase-like ...   162    4e-39
gi|62079029|ref|NP_001014173.1|  hypothetical protein LOC36135...   162    7e-39 
gi|114673047|ref|XP_001148863.1|  PREDICTED: haloacid dehaloge...   161    9e-39 
gi|85861235|ref|NP_001034291.1|  haloacid dehalogenase-like hy...   159    4e-38 
gi|14149777|ref|NP_115500.1|  haloacid dehalogenase-like hydro...   159    6e-38 
gi|114673057|ref|XP_001148387.1|  PREDICTED: haloacid dehaloge...   158    9e-38 
gi|109122087|ref|XP_001086150.1|  PREDICTED: similar to haloac...   155    8e-37 
gi|109092050|ref|XP_001088800.1|  PREDICTED: similar to haloac...   154    1e-36
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