1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	L	P	Q	S	A	L	S	E	L	L	D	A	F	R	T	G	D	G	V	D	L	I	R	D	A	V	R	L	V	L	Q	E	L	S	E	L	E	A	T	E	R	I	G	A	A	R	Y	E	R	S	D	T	R	V	T	D	R	N
Secondary structure
SS confidence
Disorder		?	?	?	?																																											?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	A	R	S	R	V	L	S	T	Q	A	G	D	V	E	L	R	I	P	K	L	R	K	G	S	F	F	P	A	I	L	E	P	R	R	R	I	D	Q	A	L	Y	A	V	V	M	E	A	Y	V	H	G	I	S	T	R	A	V	D	D
Secondary structure
SS confidence
Disorder		?		?					?												?	?	?	?	?		?																									?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	V	E	A	M	G	V	E	T	G	I	S	K	S	E	V	S	R	I	C	A	G	L	D	E	I	V	G	A	F	R	T	R	T	L	G	H	I	E	F	P	Y	V	Y	L	D	A	T	Y	L	N	V	R	N	G	T	G	Q	V	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		S	M	A	V	I	V	A	S	G	I	A	A	D	G	S	R	E	I	L	G	L	D	V	G	D	S	E	D	E	T	F	W	R	G	F	L	T	S	L	K	G	R	G	L	G	G	V	R	L	V	I	S	D	Q	H	A	G	L	V	K
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		A	L	K	R	C	F	Q	G	A	G	H	Q	R	C	R	V	H	F	A	R	N	L	L	A	H	V	P	K	D	K	A	D	M	V	A	S	M	F	R	M	I	F	S	A	P	D	A	E	A	V	H	A	T	W	E	G	V	R	D	R
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		L	A	A	S	F	P	K	I	G	P	L	M	D	D	A	R	A	E	V	L	A	F	T	A	F	P	K	A	H	W	Q	K	I	W	S	T	N	P	L	E	R	I	N	K	E	I	K	R	R	S	R	V	V	G	I	F	P	N	P	A
Secondary structure
SS confidence
Disorder																																																								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.
Sequence		A	V	I	R	L	V	G	A	V	L	A	D	M	H	D	E	W	Q	A	S	E	R	R	Y	L	S	E	A	S	M	A	L	L	Y	P	D	S	D	N	A	V	V	A	A	I	S	G	G	Q
Secondary structure
SS confidence
Disorder																					?	?	?	?		?								?													?	?	?	?
Disorder confidence

Confidence Key High(9)                     Low (0)

? Disordered ( 10%) Alpha helix ( 54%) Beta strand ( 12%)

Rank Aligned region

PDB 1k78 chain A domain 1 Region: 100 - 145 Aligned: 39 Modelled: 46 Confidence: 91.0% Identity: 18% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Paired domain Phyre2 PDB 6pax chain A domain 1 Region: 100 - 146 Aligned: 40 Modelled: 47 Confidence: 90.5% Identity: 15% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Paired domain Phyre2 PDB 6pax chain A Region: 90 - 146 Aligned: 50 Modelled: 57 Confidence: 87.6% Identity: 14% PDB header:gene regulation/dna Chain: A: PDB Molecule:homeobox protein pax-6; PDBTitle: crystal structure of the human pax-6 paired domain-dna2 complex reveals a general model for pax protein-dna3 interactions Phyre2 PDB 4fcy chain A Region: 96 - 238 Aligned: 139 Modelled: 143 Confidence: 87.4% Identity: 18% PDB header:dna binding protein/dna Chain: A: PDB Molecule:transposase; PDBTitle: crystal structure of the bacteriophage mu transpososome Phyre2 PDB 1pdn chain C Region: 90 - 146 Aligned: 50 Modelled: 57 Confidence: 87.1% Identity: 18% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Paired domain Phyre2 PDB 1rp3 chain G Region: 103 - 155 Aligned: 46 Modelled: 53 Confidence: 82.1% Identity: 20% PDB header:transcription Chain: G: PDB Molecule:rna polymerase sigma factor sigma-28 (flia); PDBTitle: cocrystal structure of the flagellar sigma/anti-sigma complex, sigma-2 28/flgm Phyre2 PDB 1bco chain A domain 2 Region: 162 - 237 Aligned: 73 Modelled: 76 Confidence: 81.5% Identity: 22% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: mu transposase, core domain Phyre2 PDB 1au7 chain B Region: 112 - 150 Aligned: 38 Modelled: 39 Confidence: 81.4% Identity: 21% PDB header:transcription/dna Chain: B: PDB Molecule:protein pit-1; PDBTitle: pit-1 mutant/dna complex Phyre2 PDB 1e3o chain C domain 2 Region: 112 - 152 Aligned: 40 Modelled: 41 Confidence: 81.2% Identity: 18% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: POU-specific domain Phyre2 PDB 1au7 chain A domain 2 Region: 112 - 138 Aligned: 26 Modelled: 27 Confidence: 79.7% Identity: 19% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: POU-specific domain Phyre2 PDB 1u78 chain A Region: 92 - 141 Aligned: 43 Modelled: 50 Confidence: 76.0% Identity: 7% PDB header:dna binding protein/dna Chain: A: PDB Molecule:transposable element tc3 transposase; PDBTitle: structure of the bipartite dna-binding domain of tc32 transposase bound to transposon dna Phyre2 PDB 2bw3 chain A Region: 131 - 283 Aligned: 144 Modelled: 153 Confidence: 72.7% Identity: 17% PDB header:dna recombination Chain: A: PDB Molecule:transposase; PDBTitle: three-dimensional structure of the hermes dna transposase Phyre2 PDB 3kor chain D Region: 86 - 145 Aligned: 53 Modelled: 60 Confidence: 71.6% Identity: 17% PDB header:transcription Chain: D: PDB Molecule:possible trp repressor; PDBTitle: crystal structure of a putative trp repressor from staphylococcus2 aureus Phyre2 PDB 1jhg chain A Region: 86 - 160 Aligned: 68 Modelled: 74 Confidence: 71.4% Identity: 15% Fold: DNA/RNA-binding 3-helical bundle Superfamily: TrpR-like Family: Trp repressor, TrpR Phyre2 PDB 2r0q chain F Region: 98 - 142 Aligned: 38 Modelled: 45 Confidence: 70.8% Identity: 26% PDB header:recombination/dna Chain: F: PDB Molecule:putative transposon tn552 dna-invertase bin3; PDBTitle: crystal structure of a serine recombinase- dna regulatory2 complex Phyre2 PDB 2k27 chain A Region: 99 - 139 Aligned: 34 Modelled: 41 Confidence: 70.7% Identity: 15% PDB header:transcription regulator Chain: A: PDB Molecule:paired box protein pax-8; PDBTitle: solution structure of human pax8 paired box domain Phyre2 PDB 3l1p chain A Region: 99 - 139 Aligned: 37 Modelled: 41 Confidence: 70.4% Identity: 16% PDB header:transcription/dna Chain: A: PDB Molecule:pou domain, class 5, transcription factor 1; PDBTitle: pou protein:dna complex Phyre2 PDB 2m8e chain A Region: 91 - 145 Aligned: 48 Modelled: 55 Confidence: 69.3% Identity: 19% PDB header:dna binding protein Chain: A: PDB Molecule:sleeping beauty transposase; PDBTitle: nmr structure of the pai subdomain of sleeping beauty transposase Phyre2 PDB 3frw chain F Region: 86 - 145 Aligned: 53 Modelled: 60 Confidence: 69.2% Identity: 17% PDB header:structural genomics, unknown function Chain: F: PDB Molecule:putative trp repressor protein; PDBTitle: crystal structure of putative trpr protein from ruminococcus obeum Phyre2 PDB 1hf0 chain A Region: 112 - 138 Aligned: 26 Modelled: 27 Confidence: 66.0% Identity: 19% PDB header:transcription Chain: A: PDB Molecule:octamer-binding transcription factor 1; PDBTitle: crystal structure of the dna-binding domain of oct-1 bound to dna as a2 dimer Phyre2 1 d1k78a1 2 d6paxa1 3 c6paxA_ 4 c4fcyA_ 5 d1pdnc_ 6 c1rp3G_ 7 d1bcoa2 8 c1au7B_ 9 d1e3oc2 10 d1au7a2 11 c1u78A_ 12 c2bw3A_ 13 c3korD_ 14 d1jhga_ 15 c2r0qF_ 16 c2k27A_ 17 c3l1pA_ 18 c2m8eA_ 19 c3frwF_ 20 c1hf0A_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99