Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human telomere repeat binding factors, TRF1 and TRF2, function as part of the 6 component shelterin complex. TRF2 binds DNA and recruits RAP1 (via binding to the RAP1 protein c-terminal (RCT)) and TIN2 in the protection of telomeres from DNA repair machinery. Metazoan shelterin consists of 3 DNA binding proteins (TRF2, TRF1, and POT1) and 3 recruited proteins that bind to one or more of these DNA-binding proteins (RAP1, TIN2, TPP1). Schizosaccharomyces pombe TAZ1 is an orthlog and binds RAP1. Human TRF1 and TRF2 bind double-stranded DNA. hTRF2 consists of a basic N-terminus, a TRF homology domain, the RAP1 binding motif (RBM), the TIN2 binding motif (TBM) and a myb-like DNA binding domain, SANT, named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. Tandem copies of the domain bind telomeric DNA tandem repeats as part of the capping complex. The single myb-like domain of TRF-type proteins is similar to the tandem myb_like domains found in yeast RAP1.

                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 30694688   6 QKWTQEEESALKSGVIKHGPGKWRTILKDPEFSGVlylRSNVDLKDKWRNM 56
Cdd:cd11660   1 RKWTDEEDEALVEGVEKYGVGNWAKILKDYFFVNN---RTSVDLKDKWRNL 48

Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human telomere repeat binding factors, TRF1 and TRF2, function as part of the 6 component shelterin complex. TRF2 binds DNA and recruits RAP1 (via binding to the RAP1 protein c-terminal (RCT)) and TIN2 in the protection of telomeres from DNA repair machinery. Metazoan shelterin consists of 3 DNA binding proteins (TRF2, TRF1, and POT1) and 3 recruited proteins that bind to one or more of these DNA-binding proteins (RAP1, TIN2, TPP1). Schizosaccharomyces pombe TAZ1 is an orthlog and binds RAP1. Human TRF1 and TRF2 bind double-stranded DNA. hTRF2 consists of a basic N-terminus, a TRF homology domain, the RAP1 binding motif (RBM), the TIN2 binding motif (TBM) and a myb-like DNA binding domain, SANT, named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. Tandem copies of the domain bind telomeric DNA tandem repeats as part of the capping complex. The single myb-like domain of TRF-type proteins is similar to the tandem myb_like domains found in yeast RAP1.

                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 30694688   6 QKWTQEEESALKSGVIKHGPGKWRTILKDPEFSGVlylRSNVDLKDKWRNM 56
Cdd:cd11660   1 RKWTDEEDEALVEGVEKYGVGNWAKILKDYFFVNN---RTSVDLKDKWRNL 48

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;

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                   ....*....|....*....|....*....|....*....|....*....|..
gi 30694688      5 KQKWTQEEESALKSGVIKHGPGKWRTILKdpEFSGvlylRSNVDLKDKWRNM 56
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAK--ELPG----RTAEQCRERWRNL 46

linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated proteins that bind to the exterior of nucleosomes and dramatically stabilize the highly condensed states of chromatin fibers; stabilization of higher order folding occurs through electrostatic neutralization of the linker DNA segments, through a highly positively charged carboxy- terminal domain known as the AKP helix (Ala, Lys, Pro); thought to be involved in specific protein-protein and protein-DNA interactions and play a role in suppressing core histone tail domain acetylation in the chromatin fiber

                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 30694688 113 PPRRPNVrlDSLIMEAIATLKEPGGCNKTTIGAYIEDQYHAPPD-FKRLLSTKLKYLTSCGKLVKVK 178
Cdd:cd00073   1 PPSHPPY--SEMVTEAIKALKERKGSSLQAIKKYIEAKYKVDDEnFNKLLKLALKKGVAKGKLVQVK 65

Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human telomere repeat binding factors, TRF1 and TRF2, function as part of the 6 component shelterin complex. TRF2 binds DNA and recruits RAP1 (via binding to the RAP1 protein c-terminal (RCT)) and TIN2 in the protection of telomeres from DNA repair machinery. Metazoan shelterin consists of 3 DNA binding proteins (TRF2, TRF1, and POT1) and 3 recruited proteins that bind to one or more of these DNA-binding proteins (RAP1, TIN2, TPP1). Schizosaccharomyces pombe TAZ1 is an orthlog and binds RAP1. Human TRF1 and TRF2 bind double-stranded DNA. hTRF2 consists of a basic N-terminus, a TRF homology domain, the RAP1 binding motif (RBM), the TIN2 binding motif (TBM) and a myb-like DNA binding domain, SANT, named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. Tandem copies of the domain bind telomeric DNA tandem repeats as part of the capping complex. The single myb-like domain of TRF-type proteins is similar to the tandem myb_like domains found in yeast RAP1.

                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 30694688   6 QKWTQEEESALKSGVIKHGPGKWRTILKDPEFSGVlylRSNVDLKDKWRNM 56
Cdd:cd11660   1 RKWTDEEDEALVEGVEKYGVGNWAKILKDYFFVNN---RTSVDLKDKWRNL 48

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.

                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|
gi 30694688   7 KWTQEEESALKSGVIKHGPGKWRTILKdpefsgVLYLRSNVDLKDKWRNM 56
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAK------ELPGRTPKQCRERWRNL 44

linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin structure. H1 links nucleosomes into higher order structures Histone H1 is replaced by histone H5 in some cell types.

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                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 30694688   124 LIMEAIATLKEPGGCNKTTIGAYIEDQYHAPPD--FKRLLSTKLKYLTSCGKLVKVKRK 180
Cdd:pfam00538   7 MIKEAIKALKERKGSSRQAIKKYIKANYKVGDVakFNSLLKRALKKGVEKGTLVQPKGT 65

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 30694688     5 KQKWTQEEESALKSGVIKHGpGKWRTILKdpefsgVLYLRSNVDLKDKWRNM 56
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAK------LLPGRTDNQCKNRWQNY 45