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PDBsum entry 4yyc
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PDB id:
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Transferase
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Title:
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Crystal structure of trimethylamine methyltransferase from sinorhizobium meliloti in complex with unknown ligand
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Structure:
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Putative trimethylamine methyltransferase. Chain: a. Engineered: yes
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Source:
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Rhizobium meliloti. Ensifer meliloti. Organism_taxid: 266834. Strain: 1021. Gene: mttb, r01976, smc04330. Expressed in: escherichia coli. Expression_system_taxid: 469008.
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Resolution:
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1.56Å
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R-factor:
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0.140
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R-free:
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0.165
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Authors:
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I.G.Shabalin,P.J.Porebski,O.A.Gasiorowska,K.B.Handing, E.Niedzialkowska,M.T.Cymborowski,D.R.Cooper,M.Stead,J.Hammonds, M.Ahmed,J.Bonanno,R.Seidel,S.C.Almo,W.Minor,New York Structural Genomics Research Consortium (Nysgrc)
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Key ref:
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E.Niedzialkowska
et al.
(2016).
Protein purification and crystallization artifacts: The tale usually not told.
Protein Sci,
25,
720-733.
PubMed id:
DOI:
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Date:
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23-Mar-15
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Release date:
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08-Apr-15
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PROCHECK
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Headers
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References
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Q92P20
(Q92P20_RHIME) -
Methyltransferase from Rhizobium meliloti (strain 1021)
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Seq:
Struc:
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524 a.a.
479 a.a.
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Key: |
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PfamA domain |
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Secondary structure |
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CATH domain |
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DOI no:
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Protein Sci
25:720-733
(2016)
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PubMed id:
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Protein purification and crystallization artifacts: The tale usually not told.
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E.Niedzialkowska,
O.Gasiorowska,
K.B.Handing,
K.A.Majorek,
P.J.Porebski,
I.G.Shabalin,
E.Zasadzinska,
M.Cymborowski,
W.Minor.
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ABSTRACT
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The misidentification of a protein sample, or contamination of a sample with the
wrong protein, may be a potential reason for the non-reproducibility of
experiments. This problem may occur in the process of heterologous
overexpression and purification of recombinant proteins, as well as purification
of proteins from natural sources. If the contaminated or misidentified sample is
used for crystallization, in many cases the problem may not be detected until
structures are determined. In the case of functional studies, the problem may
not be detected for years. Here several procedures that can be successfully used
for the identification of crystallized protein contaminants, including: (i) a
lattice parameter search against known structures, (ii) sequence or fold
identification from partially built models, and (iii) molecular replacement with
common contaminants as search templates have been presented. A list of common
contaminant structures to be used as alternative search models was provided.
These methods were used to identify four cases of purification and
crystallization artifacts. This report provides troubleshooting pointers for
researchers facing difficulties in phasing or model building.
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Links
