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 SOX9
Homo sapiens
 HIF1A
Homo sapiens
 Pax6
Mus musculus
 PAX6
Homo sapiens
 Snai2
Mus musculus
 PPARA
Homo sapiens
 Ppara
Mus musculus
 Thrb
Mus musculus
 SNAI2
Homo sapiens
 Tbr1
Mus musculus
Transcription Factor Encyclopedia  BETA
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Overview
No annotation is available in this section for this article. The content below is taken from a related TF, NFIA (Homo sapiens).

The NFI DNA-binding domain appears to be unique and at least tripartite. Phylogenetic comparison programs place NFI proteins in their own distinct family, but very distant homology exists between a portion of the NFI DNA-binding domain and MH1 (Mad Homology) domain of SMAD proteins. The homology is weak enough that it is could be a case of convergent evolution. It has also been argued that NFI proteins and MAD proteins, including mammalian SMAD proteins, are members of a highly divergent superfamily of proteins. The MH1 domain itself contains a unique Cysteine-trisulfide core and each of the homologous cysteine residues in NFIC are essential for DNA binding activity[1]. The three identified parts of the NFI DNA binding domain are the very N-terminal non-specific DNA binding segment identified by the van der Vliet laboratory[2], the MH1 homology domain, and the region C-terminal to the MH1 domain that shows no homology to any known domain but is essential for DNA binding activity.

References
  1. Gronostajski RM. Roles of the NFI/CTF gene family in transcription and development. Gene, 249(1-2):31-45. (PMID 10831836)
  1. Dekker J et al. Two regions within the DNA binding domain of nuclear factor I interact with DNA and stimulate adenovirus DNA replication independently. Mol. Cell. Biol., 16(8):4073-80. (PMID 8754805)
Structures
About this section
This section contains 3D PDB models of structural predictions for this transcription factor. METHODS: The template selection protocol follows that of Morozov and Siggia, in which templates are selected to optimize similarity of DNA-binding residues (Morozov AV, Siggia ED. PNAS 104(17):7068-73). This has been shown to increase modeling accuracy at the DNA-binding interface. For all solved structures containing DNA, amino acids within 4A of DNA (DNA-binding residues) are stored. Pfam domain hits of each DNA-bound chain are detected by hmmer, and each hit is added to a list mapping domain family name to chain hits. Pfam domain hits of each unsolved structure are detected by HMMER. For each identified Pfam family, the unsolved sequence is aligned to all solved family members (putative templates). Alignments are scored based on similarity of the DNA-binding residues in the template to the aligned residues of the unsolved sequence. For each subsequence of the unsolved protein identified as a DNA-binding domain, the top scoring template is selected. For sequences known to form homodimers, a homodimeric template is selected. The model is constructed from the template using Modeller 9v2. DNA bound to the template is added to the model by superimposition of the solved and modeled structures.
NFIC 4782 MH1 1mhdB
Image 3D Model .PDB File
Family
Unclassified Structure » Nuclear Factor I-CCAAT-binding Transcription Factor (NFI-CTF) Family
 NFIA
Homo sapiens
 Nfia
Mus musculus
 NFIB
Homo sapiens
 Nfib
Mus musculus
 NFIC
Homo sapiens
 Nfic
Mus musculus
 NFIX
Homo sapiens
 Nfix
Mus musculus
 
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