Supplementary material from different publications

Please click on the links to access the supplementary information.

2010

1. Iyer LM, Abhiman S, de Souza RF, Aravind L. (2010). Origin and evolution of peptide-modifying dioxygenases and identification of the wybutosine hydroxylase/hydroperoxidase. Nucleic Acids Res. Manuscript accepted for publication. Supplementary material.

2009

1. Iyer, L.M., Abhiman, S., Burroughs A.M., Aravind, L. (2009). Amidoligases with ATP-grasp, glutamine synthetase-like and acetyltransferase-like domains: synthesis of novel metabolites and peptide modifications of proteins. Mol Biosyst. 5(12):1636-60. Supplementary material.

2. Iyer, L.M., Tahiliani, M., Rao, A., Aravind, L. (2009). Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids. Cell Cycle. 27;8(11). Supplementary Material.

2008

1. Burroughs AM, Iyer LM, Aravind L (2008/2009).Natural history of the E1-like superfamily: Implication for adenylation, sulfur transfer, and ubiquitin conjugation. Proteins. Oct 15. [Epub ahead of print]. Supplementary material in html format.

2. Iyer LM, Burroughs AM, Aravind L. (2008). Unraveling the biochemistry and provenance of pupylation: a prokaryotic analog of ubiquitination. Biol Direct. 2008 3;3:45. Open access article. Supplementary material.

3. Iyer LM, Abhiman S, Aravind L. (2008). A new family of polymerases related to superfamily A DNA polymerases and T7-like DNA-dependent RNA polymerases. Biol Direct. 2008 4;3:39. Open access article. Supplementary material.

4. Iyer LM, Abhiman S, Aravind L. (2008). MutL homologs in restriction-modification systems and the origin of eukaryotic MORC ATPases. Biol Direct. 2008 17;3:8. Open Access article. Supplementary material

5. Burroughs AM, Jaffee M, Iyer LM, Aravind L. (2008). Anatomy of the E2 ligase fold: Implications for enzymology and evolution of ubiquitin/Ub-like protein conjugation. J Struct Biol. In Press. Supplementary material.

6. Abhiman S, Iyer LM, Aravind L. (2008) BEN: a novel domain in chromatin factors and DNA viral proteins. Bioinformatics;24(4):458-61. Open Access article, Supplementary material

7. Iyer L.M., Anantharaman V., Wolf M.Y., Aravind L. (2008). Comparative genomics of transcription factors and chromatin proteins in parasitic protists and other eukaryotes. Int J Parasitol. 38(1):1-31.

2007

1. Burroughs, A.M., Iyer, L.M., Aravind, L. (2007) Comparative Genomics and Evolutionary Trajectories of Viral ATP Dependent DNA-Packaging Systems. In Gene and Protein Evolution, Genome dynamics. Basel, Karger, Editor: Volff, J.N.; 3: 48-65. Open Access Article. Supplementary Material.

2. Iyer L.M., Anantharaman V., Aravind L. (2007)The DOMON domains are involved in heme and sugar recognition. Bioinformatics;23(20):2660-4.

3. Anantharaman V, Iyer L.M., Balaji S., Aravind L.(2007) Adhesion molecules and other secreted host-interaction determinants in apicomplexa: insights from comparative genomics. Int Rev Cytol;262:1-74.

2006

1. Iyer, L.M., Burroughs, A.M., Aravind, L. (2006) The prokaryotic antecedents of the ubiquitin-signaling system and the early evolution of ubiquitin-like beta-grasp domains. Genome Biol.: 7(7):R60. Supp file 1, Supp file 2 Supp file3.

2. Iyer, L.M., Aravind, L. (2006). Phyletic Distribution And Evolutionary Relatedness Of Proteins Involved In Prereplication Complex Assembly. In DNA Replication and Human Disease Cold Spring Harbor Laboratory Press, Cold Spring Harbor , NY.

3. Iyer, L.M., Babu, M.M., Aravind, L. (2006). The HIRAN domain and recruitment of chromatin remodeling and repair activities to damaged DNA. Cell Cycle: 5(7):775-82.

4. Iyer LM, Burroughs AM, Aravind L. (2006). The ASCH superfamily: novel domains with a fold related to the PUA domain and a potential role in RNA metabolism. Bioinformatics. 2006 Feb 1;22(3):257-63.

2005

1. Iyer L.M., Koonin E.V., Leipe D.D., Aravind L. (2005). Origin and evolution of the archaeo-eukaryotic primase superfamily and related palm-domain proteins: structural insights and new members.. Nucleic Acids Res. 33(12):3875-3896

2. L. Aravind, Anantharaman, V., Balaji, S., Babu, M.M., Iyer, L.M. (2005). The many faces of the helix-turn-helix domain: Transcription regulation and beyond. FEMS Micr. Rev. 2005 Apr;29(2):231-262. Supp(gis), Supp (alignments).

2004

1. Iyer, L.M., Leipe, D.D., Koonin, E.V. Aravind, L. (2004). Evolutionary history and higher order classification of AAA+ ATPases. J Str. Biol. 146(1-2):11-31

2002

2. Iyer LM, Koonin EV, Aravind L. (2002). Extensive domain shuffling in transcription regulators of DNA viruses and implications for the origin of fungal APSES transcription factors.

Genome Biol. 3(3):RESEARCH0012.

2001

3. Iyer, L.M., Koonin, E.V., and Aravind, L (2001). Adaptations of the helix-grip fold for ligand binding and catalysis in the START domain superfamily. Proteins. 43(2):134-44.

This page was last updated on: 11th Feb 2009