Structural and Biochemical Characterization of Recombinant Wild Type and a C30A Mutant of Trimethylamine Dehydrogenase fromMethylophilus methylotrophus(sp. W3A1)†,‡

Biochemistry ◽  
2000 ◽  
Vol 39 (26) ◽  
pp. 7678-7688 ◽  
Author(s):  
Peter Trickey ◽  
Jaswir Basran ◽  
Lu-Yun Lian ◽  
Zhi-wei Chen ◽  
John D. Barton ◽  
...  
2001 ◽  
Vol 125 (4) ◽  
pp. 1723-1731 ◽  
Author(s):  
David Dauvillée ◽  
Christophe Colleoni ◽  
Gregory Mouille ◽  
Matthew K. Morell ◽  
Christophe d'Hulst ◽  
...  

2019 ◽  
Vol 75 (1) ◽  
pp. 41-55
Author(s):  
A. V. Chandran ◽  
R. Srikalaivani ◽  
A. Paul ◽  
M. Vijayan

LexA is a protein that is involved in the SOS response. The protein from Mycobacterium tuberculosis and its mutants have been biochemically characterized and the structures of their catalytic segments have been determined. The protein is made up of an N-terminal segment, which includes the DNA-binding domain, and a C-terminal segment encompassing much of the catalytic domain. The two segments are defined by a cleavage site. Full-length LexA, the two segments, two point mutants involving changes in the active-site residues (S160A and K197A) and another mutant involving a change at the cleavage site (G126D) were cloned and purified. The wild-type protein autocleaves at basic pH, while the mutants do not. The wild-type and the mutant proteins dimerize and bind DNA with equal facility. The C-terminal segment also dimerizes, and it also shows a tendency to form tetramers. The C-terminal segment readily crystallized. The crystals obtained from attempts involving the full-length protein and its mutants contained only the C-terminal segment including the catalytic core and a few residues preceding it, in a dimeric or tetrameric form, indicating protein cleavage during the long period involved in crystal formation. Modes of tetramerization of the full-length protein similar to those observed for the catalytic core are feasible. A complex of M. tuberculosis LexA and the cognate SOS box could be modeled in which the mutual orientation of the two N-terminal domains differs from that in the Escherichia coli LexA–DNA complex. These results represent the first thorough characterization of M. tuberculosis LexA and provide definitive information on its structure and assembly. They also provide leads for further exploration of this important protein.


2016 ◽  
Vol 40 ◽  
pp. 166-173
Author(s):  
Dilşat Nigar ÇOLAK ◽  
Halil İbrahim GÜLER ◽  
Sabriye ÇANAKÇI ◽  
Ali Osman BELDÜZ

Blood ◽  
2011 ◽  
Vol 118 (21) ◽  
pp. 1309-1309
Author(s):  
Maria Cristina Keightley ◽  
Duncan P. Carradice ◽  
Graham Lieschke

Abstract Abstract 1309 In an unbiased approach for identifying novel factors important for myelopoiesis, a forward genetic screen in zebrafish was undertaken to recover mutants with defects in myeloid development. One resultant mutant, marsanne (man), shows a decrease in the number of myeloperoxidase-expressing neutrophils and the causative mutation was mapped to the gene encoding zbtb11, the zebrafish ortholog of ZBTB11, resulting in a C116S amino acid substitution. Although the function and role of ZBTB11 in physiology is unknown, by sequence homology it belongs to the BTB-ZF family of transcription factors. This family is defined by a BTB (Broad complex, Tramtrack, Bric à brac) domain, required for protein-protein interaction, and several carboxy-terminal Krüppel-like C2H2 zinc fingers (ZF) implicated in DNA binding. A series of Zbtb11 N- and C-terminal deletion and point mutation constructs were functionally tested by assaying their ability to restore the wild-type phenotype in man mutants. Mutation of conserved amino acids in the region containing the C116S mutation, which lies in an N-terminal extension unique to the Zbtb11 clade within the BTB-ZF family, renders the protein incapable of rescuing the man phenotype, implicating an important function for this highly conserved region. A series of deletion mutants indicate an in vivo requirement for the BTB domain but not for the ZF domain, the latter suggesting that if direct DNA binding occurs, it can occur through another region of Zbtb11, or else via tethering. Transfection of ZF4 cells with wild-type and C116S mutant Zbtb11 expression constructs shows that Zbtb11 is a transcriptional repressor and that the mutation abrogates the ability of Zbtb11 to repress transcription of the metallothionein 2A reporter. A three-pronged approach is underway to determine the directly-interacting proteins and target pathways of ZBTB11: 1) CHIP-Seq - monoclonal antibodies have been designed and generated to recognize mouse and human ZBTB11 with two monoclonals currently being tested in immunoprecipitation applications, prior to use in CHIP-Seq; 2) co-immunoprecipitation of ZBTB11 followed by LC-MS/MS mass spectrometry; and 3) a yeast two-hybrid screen. Mass spectrometry has revealed 187 proteins unique to lysates from ZBTB11-transfected cells versus control. Of these, 67 are known to localize to the nucleus, the likely site of ZBTB11 localization. Immunocytochemistry studies will be undertaken to confirm the cellular localization of wild-type and mutant ZBTB11. Candidate ZBTB11 interacting proteins are currently undergoing independent validation by co-immunoprecipitation/western blotting. These studies furthering the characterization of ZBTB11 function and its role in hematopoietic development are all ongoing. Several BTB-ZF proteins are known to be important in hematologic malignancies, including PLZF and Bcl-6. Studying ZBTB11, a novel transcriptional repressor, may also uncover new pathways important for myelopoiesis and disease. Disclosures: No relevant conflicts of interest to declare.


2008 ◽  
Vol 284 (2) ◽  
pp. 1313-1323 ◽  
Author(s):  
Matthew J. Bottomley ◽  
Agostino Cirillo ◽  
Laura Orsatti ◽  
Lionello Ruggeri ◽  
Timothy S. Fisher ◽  
...  

Molecules ◽  
2019 ◽  
Vol 24 (7) ◽  
pp. 1208 ◽  
Author(s):  
Mohamed H. Habib ◽  
Henriëtte J. Rozeboom ◽  
Marco W. Fraaije

DyP-type peroxidases are heme-containing enzymes that have received increasing attention over recent years with regards to their potential as biocatalysts. A novel DyP-type peroxidase (CboDyP) was discovered from the alkaliphilic cellulomonad, Cellulomonas bogoriensis, which could be overexpressed in Escherichia coli. The biochemical characterization of the recombinant enzyme showed that it is a heme-containing enzyme capable to act as a peroxidase on several dyes. With the tested substrates, the enzyme is most active at acidic pH values and is quite tolerant towards solvents. The crystal structure of CboDyP was solved which revealed atomic details of the dimeric heme-containing enzyme. A peculiar feature of CboDyP is the presence of a glutamate in the active site which in most other DyPs is an aspartate, being part of the DyP-typifying sequence motif GXXDG. The E201D CboDyP mutant was prepared and analyzed which revealed that the mutant enzyme shows a significantly higher activity on several dyes when compared with the wild-type enzyme.


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