Nin Genomic sequences

Minimum number of tobacco Nin-like genes: 11

Count of tobacco Nin-like sequences: 13

Pfam accession:

Nodule inception initially relies on cell competence in a narrow infection zone located just behind the growing root tip. Older nodules then regulate the number of nodules on a root system by suppressing the development of nodule primordia. Nin (for nodule inception) is required for the formation of infection threads and the initiation of primordia. NIN protein has regional similarity to transcription factors, and the predicted DNA-binding/dimerization domain identifies and typifies a consensus motif conserved in plant proteins with a function in nitrogen-controlled development.

The full-length Nin cDNA has an open reading frame of 2,634 bp, a 5' leader with stop codons in all three reading frames, and a 3' untranslated region of 141 bp. The protein, comprising 878 amino acids, is shown in Fig. 3a along with a diagram of several domains with similarity to transcription factors. The carboxy-terminal half of the protein carries an unusual putative DNA-binding domain with a basic region followed by two heptad leucine or isoleucine repeats (R1 and R2); an amphiphatic leucine-zipper structure was predicted for R2 by helical-wheel analysis (Fig. 3). This arrangement is similar to the DNA-binding/dimerization domains of the bZIP8 and bHLH/Z9 transcription factors, but the R1/R2 region does not comply with a strict consensus of either domain. The distance between the basic region and the zipper, for example, is longer than would be expected from the bZIP consensus. The presence of a proline helix breaker (Pro 597) in R1 also distinguishes NIN, and alignment to prokaryotic helix¨Cturn¨Chelix DNA-binding domains10 suggests a GV turn motif preceding Pro 597 (not shown). No known DNA-binding/dimerization domains combine these components, and the structure of the domain has yet to be resolved by crystallography. Two acidic domains located between residues 428¨C503 and 826¨C845 may function as transcriptional activation domains. Supporting the role as a transcription factor, NIN has SV40-like and bipartite nuclear localization signals11 (Fig. 3). Less clear is the role of a hexaglutamine stretch between residues 9¨C14 and five double and eight single glutamine residues within the first 420 amino acids.

The nitrogen regulation of nodule organogenesis and Chlamydomonas gametogenesis together with the conserved domain embedding the RWP¨CRK motif of NIN and Mid indicate that this domain is involved in the regulation of genes controlled by nitrogen status. Because the conserved domain was found only in proteins from algae and higher plants, this class of regulator proteins probably evolved after the common ancestor of algae and plants diverged from the other eukaryotes.

Papers

Schauser L, Roussis A, Stiller J, Stougaard J. A plant regulator controlling development of symbiotic root nodules Nature. 1999 Nov 11;402(6758):191-5. PMID: 10647012



Number of contigs: 11

Number of singlets: 4

Number of N terminal – 2

Number of C terminal – 5

Number of full – 6

Total minimum number – 11




Search sequences and info


Transcription factor sequences
Locus
Description
NCBI
Nin_1 [alias=Nin-like1] [comment=N terminal] ET044536
Nin_2 [alias=Nin-like2] [comment=N terminal] ET046585
ET046584
Nin_3 [alias=Nin-like3] [comment=full] ET042561
ET042560
Nin_4 [alias=Nin-like4] [comment=full] ET048984
ET048985
ET049003
Nin_5 [alias=Nin-like5] [comment=C terminal] ET049803
ET043124
ET043123
Nin_6 [alias=Nin-like6] [comment=C terminal] ET048870
ET044539
ET042857
ET042856
Nin_7 [alias=Nin-like7] [comment=C terminal] ET042541
ET042505
ET042506
ET049391
Nin_8 [alias=Nin-like8] [comment=full] ET043204
ET044804
ET051821
ET044805
ET046920
Nin_9 [alias=Nin-like9] [comment=full] ET046632
ET046181
ET047063
ET046633
ET046182
ET044904
Nin_10 [alias=Nin-like10] [comment=full] ET048271
ET051330
ET051080
ET047715
ET051079
ET045308
Nin_11 [alias=Nin-like11] [comment=full] ET051734
ET042760
ET043256
ET042060
ET048826
ET043299
ET049661
Nin_12 [alias=Nin-like12] [comment=C terminal] ET047046
Nin_13 [alias=Nin-like13] [comment=C terminal] ET043205


Tobacco published genes related to transcription factor family Nin
Family Genbank ID Name
Authors of this site:

Paul J Rushton
Marta T. Bokowiec
Xianfeng (Jeff) Chen
Thomas (Tom) W Laudeman
Jennifer F. Brannock
Michael P. Timko

Contact:

pr8y@virginia.edu