HMG Genomic sequences

Minimum number of tobacco HMG genes: 9

Count of tobacco HMG sequences: 10

Pfam accession: HMG_box

SHOULD possess HMG_box domain but SHOULD NOT possess ARID YABBY domains

High mobility group (HMG or HMGB) proteins are a family of relatively low molecular weight non-histone components in chromatin. HMG1 (also called HMG-T in fish) and HMG2 are two highly related proteins that bind single-stranded DNA preferentially and unwind double-stranded DNA. Although they have no sequence specificity, they have a high affinity for bent or distorted DNA, and bend linear DNA. HMG1 and HMG2 contain two DNA-binding HMG-box domains (A and B) that show structural and functional differences, and have a long acidic C-terminal domain rich in aspartic and glutamic acid residues. The acidic tail modulates the affinity of the tandem HMG boxes in HMG1 and 2 for a variety of DNA targets. HMG1 and 2 appear to play important architectural roles in the assembly of nucleoprotein complexes in a variety of biological processes, for example V(D)J recombination, the initiation of transcription, and DNA repair.

The profile in this entry describing the HMG-domains is much more general than the signature. In addition to the HMG1 and HMG2 proteins, HMG-domains occur in single or multiple copies in the following protein classes; the SOX family of transcription factors; SRY sex determining region Y protein and related proteins; LEF1 lymphoid enhancer binding factor 1; SSRP recombination signal recognition protein; MTF1 mitochondrial transcription factor 1; UBF1/2 nucleolar transcription factors; Abf2 yeast ARS-binding factor; and Saccharomyces cerevisiae transcription factors Ixr1, Rox1, Nhp6a, Nhp6b and Spp41.

Papers

Grasser, KD; Teo, SH; Lee, KB; Broadhurst, RW; Rees, C; Hardman, CH; Thomas, JO. DNA-binding properties of the tandem HMG boxes of high-mobility-group protein 1 (HMG1). Eur. J. Biochem. 1998. 253(3):787-95 PMID: 9654080

Griess, EA; Rensing, SA; Grasser, KD; Maier, UG; Feix, G. Phylogenetic relationships of HMG box DNA-binding domains. J. Mol. Evol. 1993. 37(2):204-10 PMID: 8411210

Wissmüller, S; Kosian, T; Wolf, M; Finzsch, M; Wegner, M. The high-mobility-group domain of Sox proteins interacts with DNA-binding domains of many transcription factors. Nucleic Acids Res. 2006. 34(6):1735-44 PMID: 16582099



Number of contigs: 10

Number of singlets: 0

Number of N terminal – 1

Number of C terminal – 2

Number of full – 7

Total minimum number – 9




Search sequences and info


Transcription factor sequences
Locus
Description
NCBI
HMG_1 [comment=C terminal] ET043904
ET043649
HMG_2 [comment=full] ET046475
ET049192
HMG_3 [comment=C terminal] ET050585
ET048376
ET047812
HMG_4 [comment=N terminal] ET050860
ET047935
ET044842
HMG_5 [comment=full] ET043778
ET046825
ET047477
HMG_6 [comment=full] ET042719
ET042720
ET046531
ET046522
HMG_7 [comment=full] ET044547
ET049966
ET048533
ET048250
HMG_8 [comment=full] ET043328
ET050377
ET051629
ET045461
ET050364
ET045474
HMG_9 [comment=full] ET048536
ET043041
ET046727
ET045233
ET048537
ET049381
ET042356
HMG_10 [comment=full] ET047772
ET048154
ET046880
ET050237
ET046881
ET048155
ET044278
ET050238
ET044277
ET050337
ET042058


Tobacco published genes related to transcription factor family HMG
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