User:Jonathan Cline/Notebook/Melaminometer/Structural Models: Difference between revisions

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(New page: == Structural Models for Specific Proteins == * melamine deaminase ** Family: Amidohydro_1 (PF01979) *** http://pfam.sanger.ac.uk/family?acc=PF01979)
 
 
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== Structural Models for Specific Proteins ==
== Structural Models for Specific Proteins ==
Some related data available.
=== Pfam & InterPro ===


* melamine deaminase
* melamine deaminase
** Family: Amidohydro_1 (PF01979)
** Family: Amidohydro_1 (PF01979) http://pfam.sanger.ac.uk/family?acc=PF01979
*** http://pfam.sanger.ac.uk/family?acc=PF01979
*** http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR006680
* ammelide aminohydrolase
** Family: Amidohydro_3 (PF07969)  http://pfam.sanger.ac.uk/family?acc=PF07969
* cyanuric acid amidohydrolase
** Family: Amido_AtzD_TrzD (PF09663) http://pfam.sanger.ac.uk/family?acc=PF09663
* biuret hydrolase
** Family: Amidase (PF01425) http://pfam.sanger.ac.uk/family?acc=PF01425
** InterPro: IPR000120 Amidase signature enzyme http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR000120
* allophanate hydrolase
** not found
 
 
{| border=1
! Search by TriA sequence
! Search by Melamine structure
|-
|
* 42 ligand hits were found by TriA sequence search in [http://www.rcsb.org/pdb/home/home.do PDB]. The ligands similar to melamine structure are:
[[Image:Ligand hits by TriA sequence search in PDB.png|400px]]
|
* one protein hit ([http://www.rcsb.org/pdb/explore.do?structureId=3BMM 3BMM]) were found by EXACT melamine structure search in PDB
* There are 4 identical protein chains (A, B, C and D) in this structure
[[Image:Protein hit by exact melamine structure search in PDB.png|400px]]
* 3D snapshot of 3BMM structure in jmol
[[Image:3BMM structure in jmol.png|400px]]
* TriA and chains in 3BMM are locally similar in sequence (TriA vs. Chain C in 3BMM)
[[Image:TriA vs. 3BMM chainC.png|400px]]
|-
|}

Latest revision as of 18:05, 14 January 2009

Structural Models for Specific Proteins

Some related data available.

Pfam & InterPro


Search by TriA sequence Search by Melamine structure
  • 42 ligand hits were found by TriA sequence search in PDB. The ligands similar to melamine structure are:
  • one protein hit (3BMM) were found by EXACT melamine structure search in PDB
  • There are 4 identical protein chains (A, B, C and D) in this structure

  • 3D snapshot of 3BMM structure in jmol

  • TriA and chains in 3BMM are locally similar in sequence (TriA vs. Chain C in 3BMM)

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