Structure Note
Mycobacterium tuberculosis Rv2704 is a member of the YjgF/YER057c/UK114 family
Krishan Gopal Thakur,
T. Praveena,
B. Gopal,
Krishan Gopal Thakur
Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012, India
Krishan Gopal Thakur and T. Praveena contributed equally to this work.
Search for more papers by this authorT. Praveena
Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012, India
Krishan Gopal Thakur and T. Praveena contributed equally to this work.
Search for more papers by this authorCorresponding Author
B. Gopal
Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012, India
Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012===Search for more papers by this authorKrishan Gopal Thakur,
T. Praveena,
B. Gopal,
Krishan Gopal Thakur
Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012, India
Krishan Gopal Thakur and T. Praveena contributed equally to this work.
Search for more papers by this authorT. Praveena
Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012, India
Krishan Gopal Thakur and T. Praveena contributed equally to this work.
Search for more papers by this authorCorresponding Author
B. Gopal
Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012, India
Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012===Search for more papers by this author
Supporting Information
Additional Supporting Information may be found in the online version of this article.
| Filename | Description |
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| PROT_22623_sm_suppfig1.tif399 KB | Supplementary Fig. 1. (A) YjgF domains in large multi-domain proteins. An analysis using a limited number of genomic sequences suggested that YjgF proteins do not exist as a domain in multi-domain proteins17. In our analysis with a more updated version of the conserved domain database, we note that there are more than 150 proteins having at least one YjgF domain and ca 100 members having two such domains. The role of these YjgF domains in larger proteins is unclear. The number of known members with a given architecture in the database is listed at the end of each class. (B) Operon analysis. Rv2704 is a part of predicted σA-Rv2704 operon in M. tuberculosis H37Rv. This organization of the σA operon (σA preceding the YjgF homologue) is maintained in some pathogenic mycobacteria like M. ulcerans, M. bovis and M. avium. |
| PROT_22623_sm_suppfig2.tif2.4 MB | Supplementary Fig. 2. (A) Structural superimposition of the proposed active site of Rv2704 with five other structural homologs (PDB IDs-1ONI, 2UYN, 2X25, 1QD9, 1QAH). The labels at the top correspond to Rv2704 whereas the labels below correspond to TdcF solved in complex with 2-ketobutyrate (PDB ID 2UYN). Oxygen and carbon atoms of ligand, 2-ketobutyrate, are shown by red and green spheres. Hydrogen bonds are shown by dashed red lines. The side chain of Met100 has not been shown in this figure for clarity. (B) Toplogy diagrams of structural homologs of Rv2704. Topology diagrams were obtained using website PDBsum. Blue arrows indicate the position of helix a1 in Rv2704 and its corresponding structural features in homologue structures. Sequence identities and the RMSDs of the corresponding structures are summarized in supplementary Table I. |
| PROT_22623_sm_supptable1.doc53 KB | Supplementary Table I. Structure-Function correlation in YjgF proteins |
Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
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