Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	Y	Q	L	T	A	L	E	A	R	V	I	G	C	L	L	E	K	Q	V	T	T	P	E	Q	Y	P	L	S	V	N	G	V	V	T	A	C	N	Q	K	T	N	R	E	P	V	M	N	L	S	E	S	E	V	Q	E	Q	L	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																															?	?	?			?	?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		N	L	V	K	R	H	Y	L	R	T	V	S	G	F	G	N	R	V	T	K	Y	E	Q	R	F	C	N	S	E	F	G	D	L	K	L	S	A	A	E	V	A	L	I	T	T	L	L	L	R	G	A	Q	T	P	G	E	L	R	S	R
Secondary structure
SS confidence
Disorder											?	?	?	?	?	?	?	?	?												?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	A	R	M	Y	E	F	S	D	M	A	E	V	E	S	T	L	E	Q	L	A	N	R	E	D	G	P	F	V	V	R	L	A	R	E	P	G	K	R	E	N	R	Y	M	H	L	F	S	G	E	V	E	D	Q	P	A	V	T	D	M
Secondary structure
SS confidence
Disorder								?																																												?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.
Sequence		S	N	A	V	D	G	D	L	Q	A	R	V	E	A	L	E	I	E	V	A	E	L	K	Q	R	L	D	S	L	L	A	H	L	G	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?																										?	?
Disorder confidence

Confidence Key
High(9)											Low (0)

?	Disordered
	Alpha helix
	Beta strand

Domain analysis

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank Aligned region

PDB 3bz6 chain A Region: 3 - 175 Aligned: 164 Modelled: 166 Confidence: 100.0% Identity: 43% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0502 protein pspto_2686; PDBTitle: crystal structure of a conserved protein of unknown function from2 pseudomonas syringae pv. tomato str. dc3000 Phyre2 PDB 3bz6 chain A domain 1 Region: 3 - 84 Aligned: 80 Modelled: 82 Confidence: 100.0% Identity: 46% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: PSPTO2686-like Phyre2 PDB 3bz6 chain A domain 2 Region: 85 - 175 Aligned: 84 Modelled: 88 Confidence: 100.0% Identity: 39% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: PSPTO2686-like Phyre2 PDB 1stz chain A domain 1 Region: 4 - 79 Aligned: 66 Modelled: 76 Confidence: 95.5% Identity: 18% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Heat-inducible transcription repressor HrcA, N-terminal domain Phyre2 PDB 3l9f chain D Region: 99 - 213 Aligned: 112 Modelled: 115 Confidence: 94.6% Identity: 10% PDB header:transcription regulator Chain: D: PDB Molecule:putative uncharacterized protein smu.1604c; PDBTitle: the crystal structure of smu.1604c from streptococcus mutans ua159 Phyre2 PDB 1okr chain A Region: 92 - 151 Aligned: 56 Modelled: 60 Confidence: 93.0% Identity: 14% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Penicillinase repressor Phyre2 PDB 1sd4 chain A Region: 92 - 151 Aligned: 56 Modelled: 57 Confidence: 92.7% Identity: 14% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Penicillinase repressor Phyre2 PDB 1z91 chain A domain 1 Region: 77 - 214 Aligned: 125 Modelled: 138 Confidence: 92.2% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: MarR-like transcriptional regulators Phyre2 PDB 2g9w chain A domain 1 Region: 94 - 211 Aligned: 108 Modelled: 118 Confidence: 91.4% Identity: 19% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Penicillinase repressor Phyre2 PDB 1sfx chain A Region: 75 - 164 Aligned: 77 Modelled: 90 Confidence: 90.8% Identity: 25% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: TrmB-like Phyre2 PDB 3cjn chain A Region: 76 - 166 Aligned: 80 Modelled: 91 Confidence: 89.5% Identity: 24% PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of transcriptional regulator, marr family, from2 silicibacter pomeroyi Phyre2 PDB 3bpx chain B Region: 76 - 164 Aligned: 81 Modelled: 89 Confidence: 89.0% Identity: 22% PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of marr Phyre2 PDB 2k4b chain A Region: 93 - 151 Aligned: 55 Modelled: 56 Confidence: 89.0% Identity: 20% PDB header:dna binding protein Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: copr repressor structure Phyre2 PDB 2v79 chain B Region: 1 - 76 Aligned: 64 Modelled: 76 Confidence: 88.6% Identity: 13% PDB header:dna-binding protein Chain: B: PDB Molecule:dna replication protein dnad; PDBTitle: crystal structure of the n-terminal domain of dnad from2 bacillus subtilis Phyre2 PDB 1p6r chain A Region: 94 - 151 Aligned: 54 Modelled: 58 Confidence: 88.3% Identity: 15% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Penicillinase repressor Phyre2 PDB 1ub9 chain A Region: 6 - 107 Aligned: 74 Modelled: 92 Confidence: 86.7% Identity: 11% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: MarR-like transcriptional regulators Phyre2 PDB 2pex chain A Region: 77 - 214 Aligned: 118 Modelled: 127 Confidence: 86.0% Identity: 23% PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator ohrr; PDBTitle: structure of reduced c22s ohrr from xanthamonas campestris Phyre2 PDB 3s2w chain B Region: 76 - 155 Aligned: 72 Modelled: 80 Confidence: 85.5% Identity: 14% PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: the crystal structure of a marr transcriptional regulator from2 methanosarcina mazei go1 Phyre2 PDB 1s3j chain A Region: 77 - 164 Aligned: 80 Modelled: 85 Confidence: 85.1% Identity: 14% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: MarR-like transcriptional regulators Phyre2 PDB 1jgs chain A Region: 76 - 164 Aligned: 81 Modelled: 89 Confidence: 84.9% Identity: 23% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: MarR-like transcriptional regulators Phyre2 1 c3bz6A_ 2 d3bz6a1 3 d3bz6a2 4 d1stza1 5 c3l9fD_ 6 d1okra_ 7 d1sd4a_ 8 d1z91a1 9 d2g9wa1 10 d1sfxa_ 11 c3cjnA_ 12 c3bpxB_ 13 c2k4bA_ 14 c2v79B_ 15 d1p6ra_ 16 d1ub9a_ 17 c2pexA_ 18 c3s2wB_ 19 d1s3ja_ 20 d1jgsa_ 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 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168

Detailed template information

# Template Alignment Coverage 3D Model Confidence % i.d. Template Information

1 c3bz6A_ 100.0 43 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0502 protein pspto_2686; PDBTitle: crystal structure of a conserved protein of unknown function from2 pseudomonas syringae pv. tomato str. dc3000 2 d3bz6a1 100.0 46 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PSPTO2686-like 3 d3bz6a2 100.0 39 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PSPTO2686-like 4 d1stza1 95.5 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Heat-inducible transcription repressor HrcA, N-terminal domain 5 c3l9fD_ 94.6 10 PDB header:transcription regulator Chain: D: PDB Molecule:putative uncharacterized protein smu.1604c; PDBTitle: the crystal structure of smu.1604c from streptococcus mutans ua159 6 d1okra_ 93.0 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Penicillinase repressor 7 d1sd4a_ 92.7 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Penicillinase repressor 8 d1z91a1 92.2 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 9 d2g9wa1 91.4 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Penicillinase repressor 10 d1sfxa_ 90.8 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:TrmB-like 11 c3cjnA_ 89.5 24 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of transcriptional regulator, marr family, from2 silicibacter pomeroyi 12 c3bpxB_ 89.0 22 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of marr 13 c2k4bA_ 89.0 20 PDB header:dna binding protein Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: copr repressor structure 14 c2v79B_ 88.6 13 PDB header:dna-binding protein Chain: B: PDB Molecule:dna replication protein dnad; PDBTitle: crystal structure of the n-terminal domain of dnad from2 bacillus subtilis 15 d1p6ra_ 88.3 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Penicillinase repressor 16 d1ub9a_ 86.7 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 17 c2pexA_ 86.0 23 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator ohrr; PDBTitle: structure of reduced c22s ohrr from xanthamonas campestris 18 c3s2wB_ 85.5 14 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: the crystal structure of a marr transcriptional regulator from2 methanosarcina mazei go1 19 d1s3ja_ 85.1 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 20 d1jgsa_ 84.9 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 21 c3l7wA_ not modelled 84.8 17 PDB header:transcription Chain: A: PDB Molecule:putative uncharacterized protein smu.1704; PDBTitle: the crystal structure of smu.1704 from streptococcus mutans ua159 22 c3hhhA_ not modelled 84.4 19 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, padr family; PDBTitle: crystal structure of transcriptional regulator, a member of padr2 family, from enterococcus faecalis v583 23 c2qwwB_ not modelled 84.1 15 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of multiple antibiotic-resistance repressor (marr)2 (yp_013417.1) from listeria monocytogenes 4b f2365 at 2.07 a3 resolution 24 c3k0lA_ not modelled 84.0 15 PDB header:transcription regulator Chain: A: PDB Molecule:repressor protein; PDBTitle: crystal structure of putative marr family transcriptional2 regulator from acinetobacter sp. adp 25 c3bj6B_ not modelled 83.9 16 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of marr family transcription regulator sp03579 26 d1lj9a_ not modelled 83.5 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 27 c2e1nA_ not modelled 82.1 18 PDB header:circadian clock protein Chain: A: PDB Molecule:pex; PDBTitle: crystal structure of the cyanobacterium circadian clock modifier pex 28 c2gxgA_ not modelled 80.7 20 PDB header:transcription Chain: A: PDB Molecule:146aa long hypothetical transcriptional regulator; PDBTitle: crystal structure of emrr homolog from hyperthermophilic archaea2 sulfolobus tokodaii strain7 29 d2hr3a1 not modelled 80.3 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 30 c1xmaA_ not modelled 80.2 13 PDB header:transcription Chain: A: PDB Molecule:predicted transcriptional regulator; PDBTitle: structure of a transcriptional regulator from clostridium thermocellum2 cth-833 31 d1xmaa_ not modelled 80.2 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PadR-like 32 c2rdpA_ not modelled 80.1 15 PDB header:transcription Chain: A: PDB Molecule:putative transcriptional regulator marr; PDBTitle: the structure of a marr family protein from bacillus2 stearothermophilus 33 d2fbia1 not modelled 78.9 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 34 c1ij2B_ not modelled 78.8 24 PDB header:transcription Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-pvtl coiled-coil trimer with threonine at the a(16)2 position 35 c2dqlA_ not modelled 78.0 15 PDB header:circadian clock protein Chain: A: PDB Molecule:pex protein; PDBTitle: crytal structure of the circadian clock associated protein2 pex from anabaena 36 c2w57A_ not modelled 77.8 20 PDB header:metal transport Chain: A: PDB Molecule:ferric uptake regulation protein; PDBTitle: crystal structure of the vibrio cholerae ferric uptake2 regulator (fur) reveals structural rearrangement of the3 dna-binding domains 37 c2vn2B_ not modelled 77.4 13 PDB header:replication Chain: B: PDB Molecule:chromosome replication initiation protein; PDBTitle: crystal structure of the n-terminal domain of dnad protein2 from geobacillus kaustophilus hta426 38 c2fxaB_ not modelled 77.4 18 PDB header:transcription Chain: B: PDB Molecule:protease production regulatory protein hpr; PDBTitle: structure of the protease production regulatory protein hpr from2 bacillus subtilis. 39 d2bv6a1 not modelled 77.2 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 40 d2fbha1 not modelled 77.2 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 41 c3g3zA_ not modelled 76.5 16 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator, marr family; PDBTitle: the structure of nmb1585, a marr family regulator from neisseria2 meningitidis 42 c2xzrA_ not modelled 76.1 4 PDB header:cell adhesion Chain: A: PDB Molecule:immunoglobulin-binding protein eibd; PDBTitle: escherichia coli immunoglobulin-binding protein eibd 391-438 fused2 to gcn4 adaptors 43 c2fe3B_ not modelled 75.9 13 PDB header:dna binding protein Chain: B: PDB Molecule:peroxide operon regulator; PDBTitle: the crystal structure of bacillus subtilis perr-zn reveals a novel2 zn(cys)4 structural redox switch 44 c1p9iA_ not modelled 75.4 38 PDB header:unknown function Chain: A: PDB Molecule:cortexillin i/gcn4 hybrid peptide; PDBTitle: coiled-coil x-ray structure at 1.17 a resolution 45 d1ku9a_ not modelled 73.8 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:DNA-binding protein Mj223 46 c1ce0B_ not modelled 73.7 14 PDB header:hiv-1 envelope protein Chain: B: PDB Molecule:protein (leucine zipper model h38-p1); PDBTitle: trimerization specificity in hiv-1 gp41: analysis with a2 gcn4 leucine zipper model 47 c1ztaA_ not modelled 73.1 23 PDB header:dna-binding motif Chain: A: PDB Molecule:leucine zipper monomer; PDBTitle: the solution structure of a leucine-zipper motif peptide 48 c1ij2C_ not modelled 73.0 25 PDB header:transcription Chain: C: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-pvtl coiled-coil trimer with threonine at the a(16)2 position 49 c1rb1A_ not modelled 72.9 25 PDB header:dna binding protein Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution 50 c3k7zA_ not modelled 72.9 25 PDB header:dna binding protein Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution 51 c3k7zB_ not modelled 72.9 25 PDB header:dna binding protein Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution 52 c1rb1B_ not modelled 72.9 25 PDB header:dna binding protein Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution 53 c2xv4S_ not modelled 72.8 23 PDB header:transcription Chain: S: PDB Molecule:dna-directed rna polymerase iii subunit rpc3; PDBTitle: structure of human rpc62 (partial) 54 c1ij3C_ not modelled 72.7 25 PDB header:transcription Chain: C: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-pvsl coiled-coil trimer with serine at the a(16)2 position 55 c3oopA_ not modelled 72.7 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin2960 protein; PDBTitle: the structure of a protein with unknown function from listeria innocua2 clip11262 56 c1ij3B_ not modelled 72.6 25 PDB header:transcription Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-pvsl coiled-coil trimer with serine at the a(16)2 position 57 d2cfxa1 not modelled 72.6 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 58 c3e6mD_ not modelled 72.0 18 PDB header:transcription regulator Chain: D: PDB Molecule:marr family transcriptional regulator; PDBTitle: the crystal structure of a marr family transcriptional2 regulator from silicibacter pomeroyi dss. 59 c3bjaA_ not modelled 71.7 14 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, marr family, putative; PDBTitle: crystal structure of putative marr-like transcription regulator2 (np_978771.1) from bacillus cereus atcc 10987 at 2.38 a resolution 60 c1swiA_ not modelled 71.6 25 PDB header:leucine zipper Chain: A: PDB Molecule:gcn4p1; PDBTitle: gcn4-leucine zipper core mutant as n16a complexed with2 benzene 61 c1rb6C_ not modelled 71.4 25 PDB header:dna binding protein Chain: C: PDB Molecule:general control protein gcn4; PDBTitle: antiparallel trimer of gcn4-leucine zipper core mutant as2 n16a tetragonal form 62 c2o7hF_ not modelled 71.2 29 PDB header:transcription Chain: F: PDB Molecule:general control protein gcn4; PDBTitle: crystal structure of trimeric coiled coil gcn4 leucine zipper 63 c1p4xA_ not modelled 69.7 19 PDB header:transcription Chain: A: PDB Molecule:staphylococcal accessory regulator a homologue; PDBTitle: crystal structure of sars protein from staphylococcus aureus 64 c3edpB_ not modelled 69.1 23 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:lin2111 protein; PDBTitle: the crystal structure of the protein lin2111 (functionally unknown)2 from listeria innocua clip11262 65 c2o03A_ not modelled 68.6 25 PDB header:gene regulation Chain: A: PDB Molecule:probable zinc uptake regulation protein furb; PDBTitle: crystal structure of furb from m. tuberculosis- a zinc uptake2 regulator 66 d1hw1a1 not modelled 66.6 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:GntR-like transcriptional regulators 67 d2frha1 not modelled 65.9 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 68 c3r0aB_ not modelled 65.3 18 PDB header:transcription regulator Chain: B: PDB Molecule:putative transcriptional regulator; PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196) 69 c3eyyA_ not modelled 64.1 17 PDB header:transport Chain: A: PDB Molecule:putative iron uptake regulatory protein; PDBTitle: structural basis for the specialization of nur, a nickel-2 specific fur homologue, in metal sensing and dna3 recognition 70 c3bwgA_ not modelled 63.5 26 PDB header:transcription regulator Chain: A: PDB Molecule:uncharacterized hth-type transcriptional regulator yydk; PDBTitle: the crystal structure of possible transcriptional regulator yydk from2 bacillus subtilis subsp. subtilis str. 168 71 c3f3xA_ not modelled 63.4 11 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator, marr family, putative; PDBTitle: crystal structure of the transcriptional regulator bldr2 from sulfolobus solfataricus 72 d2a61a1 not modelled 62.9 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 73 c2h09A_ not modelled 62.0 13 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator mntr; PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli 74 d1lnwa_ not modelled 62.0 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 75 c2xigA_ not modelled 61.3 13 PDB header:transcription Chain: A: PDB Molecule:ferric uptake regulation protein; PDBTitle: the structure of the helicobacter pylori ferric uptake2 regulator fur reveals three functional metal binding sites 76 c3ihuA_ not modelled 61.2 16 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, gntr family; PDBTitle: crystal structure of dna binding protein (yp_298823.1) from ralstonia2 eutropha jmp134 at 1.92 a resolution 77 c3ic7A_ not modelled 60.6 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator of gntr family2 from bacteroides thetaiotaomicron 78 c3deuB_ not modelled 58.6 13 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator slya; PDBTitle: crystal structure of transcription regulatory protein slya2 from salmonella typhimurium in complex with salicylate3 ligands 79 c2hs5A_ not modelled 58.0 19 PDB header:transcription regulator Chain: A: PDB Molecule:putative transcriptional regulator gntr; PDBTitle: structural genomics, the crystal structure of a putative2 transcriptional regulator gntr from rhodococcus sp. rha1 80 c1e2xA_ not modelled 57.8 19 PDB header:transcriptional regulation Chain: A: PDB Molecule:fatty acid metabolism regulator protein; PDBTitle: fadr, fatty acid responsive transcription factor from e.2 coli 81 c1u0iA_ not modelled 57.3 37 PDB header:de novo protein Chain: A: PDB Molecule:iaal-e3; PDBTitle: iaal-e3/k3 heterodimer 82 c3f8fA_ not modelled 57.1 18 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, padr-like family; PDBTitle: crystal structure of multidrug binding transcriptional regulator lmrr2 complexed with daunomycin 83 c2di3A_ not modelled 56.9 26 PDB header:transcription Chain: A: PDB Molecule:bacterial regulatory proteins, gntr family; PDBTitle: crystal structure of the transcriptional factor cgl29152 from corynebacterium glutamicum 84 c3nqoB_ not modelled 56.3 19 PDB header:transcription Chain: B: PDB Molecule:marr-family transcriptional regulator; PDBTitle: crystal structure of a marr family transcriptional regulator (cd1569)2 from clostridium difficile 630 at 2.20 a resolution 85 d1ulya_ not modelled 56.1 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Hypothetical protein PH1932 86 d3broa1 not modelled 55.0 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 87 c2fu4B_ not modelled 55.0 24 PDB header:dna binding protein Chain: B: PDB Molecule:ferric uptake regulation protein; PDBTitle: crystal structure of the dna binding domain of e.coli fur (ferric2 uptake regulator) 88 c2z99A_ not modelled 54.4 20 PDB header:cell cycle Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of scpb from mycobacterium tuberculosis 89 d1p4xa1 not modelled 54.2 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 90 c3nrvC_ not modelled 53.3 14 PDB header:transcription regulator Chain: C: PDB Molecule:putative transcriptional regulator (marr/emrr family); PDBTitle: crystal structure of marr/emrr family transcriptional regulator from2 acinetobacter sp. adp1 91 c3by6C_ not modelled 52.9 19 PDB header:transcription regulator Chain: C: PDB Molecule:predicted transcriptional regulator; PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni 92 c3bddD_ not modelled 52.6 22 PDB header:transcription Chain: D: PDB Molecule:regulatory protein marr; PDBTitle: crystal structure of a putative multiple antibiotic-resistance2 repressor (ssu05_1136) from streptococcus suis 89/1591 at 2.20 a3 resolution 93 c3fmsA_ not modelled 50.2 14 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, gntr family; PDBTitle: crystal structure of tm0439, a gntr transcriptional2 regulator 94 c2du9A_ not modelled 49.9 16 PDB header:transcription Chain: A: PDB Molecule:predicted transcriptional regulators; PDBTitle: crystal structure of the transcriptional factor from c.glutamicum 95 c2nnnB_ not modelled 48.6 19 PDB header:transcription Chain: B: PDB Molecule:probable transcriptional regulator; PDBTitle: crystal structure of probable transcriptional regulator from2 pseudomonas aeruginosa 96 c3cdhB_ not modelled 47.9 15 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of the marr family transcriptional regulator spo14532 from silicibacter pomeroyi dss-3 97 c3f8mA_ not modelled 47.1 10 PDB header:transcription Chain: A: PDB Molecule:gntr-family protein transcriptional regulator; PDBTitle: crystal structure of phnf from mycobacterium smegmatis 98 d2hs5a1 not modelled 47.0 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:GntR-like transcriptional regulators 99 d1mzba_ not modelled 46.9 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:FUR-like 100 c2fa5B_ not modelled 46.8 21 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator marr/emrr family; PDBTitle: the crystal structure of an unliganded multiple antibiotic-2 resistance repressor (marr) from xanthomonas campestris 101 c3c7jA_ not modelled 45.3 17 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, gntr family; PDBTitle: crystal structure of transcriptional regulator (gntr family member)2 from pseudomonas syringae pv. tomato str. dc3000 102 c2e43A_ not modelled 44.3 26 PDB header:transcription/dna Chain: A: PDB Molecule:ccaat/enhancer-binding protein beta; PDBTitle: crystal structure of c/ebpbeta bzip homodimer k269a mutant2 bound to a high affinity dna fragment 103 c3neuA_ not modelled 43.8 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin1836 protein; PDBTitle: the crystal structure of a functionally-unknown protein lin1836 from2 listeria innocua clip11262 104 c3mkxC_ not modelled 43.3 12 PDB header:antiviral protein Chain: C: PDB Molecule:bone marrow stromal antigen 2; PDBTitle: crystal structure of bst2/tetherin 105 c3bq3A_ not modelled 42.7 18 PDB header:cell cycle, ligase Chain: A: PDB Molecule:defective in cullin neddylation protein 1; PDBTitle: crystal structure of s. cerevisiae dcn1 106 c1dh3A_ not modelled 42.5 30 PDB header:transcription/dna Chain: A: PDB Molecule:transcription factor creb; PDBTitle: crystal structure of a creb bzip-cre complex reveals the2 basis for creb faimly selective dimerization and dna3 binding 107 c1fosF_ not modelled 42.2 19 PDB header:transcription/dna Chain: F: PDB Molecule:c-jun proto-oncogene protein; PDBTitle: two human c-fos:c-jun:dna complexes 108 d3bwga1 not modelled 41.2 26 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:GntR-like transcriptional regulators 109 c3he5A_ not modelled 41.2 38 PDB header:de novo protein Chain: A: PDB Molecule:synzip1; PDBTitle: heterospecific coiled-coil pair synzip2:synzip1 110 c3mwmA_ not modelled 40.7 21 PDB header:transcription Chain: A: PDB Molecule:putative metal uptake regulation protein; PDBTitle: graded expression of zinc-responsive genes through two regulatory2 zinc-binding sites in zur 111 d2fbka1 not modelled 40.5 27 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 112 c1zxaB_ not modelled 40.1 24 PDB header:transferase Chain: B: PDB Molecule:cgmp-dependent protein kinase 1, alpha isozyme; PDBTitle: solution structure of the coiled-coil domain of cgmp-2 dependent protein kinase ia 113 d1p4xa2 not modelled 38.9 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 114 d1mw9x_ not modelled 38.8 13 Fold:Prokaryotic type I DNA topoisomerase Superfamily:Prokaryotic type I DNA topoisomerase Family:Prokaryotic type I DNA topoisomerase 115 d2fxaa1 not modelled 38.4 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 116 c1fosE_ not modelled 38.0 33 PDB header:transcription/dna Chain: E: PDB Molecule:p55-c-fos proto-oncogene protein; PDBTitle: two human c-fos:c-jun:dna complexes 117 c1u2uA_ not modelled 37.9 33 PDB header:transcription Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: nmr solution structure of a designed heterodimeric leucine2 zipper 118 d2etha1 not modelled 37.9 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 119 c1t2kD_ not modelled 37.0 19 PDB header:transcription/dna Chain: D: PDB Molecule:cyclic-amp-dependent transcription factor atf-2; PDBTitle: structure of the dna binding domains of irf3, atf-2 and jun2 bound to dna 120 d1dpua_ not modelled 34.0 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:C-terminal domain of RPA32

Binding site prediction

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite

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Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
© Structural Bioinformatics Group Imperial College London Lawrence Kelley, Benjamin Jefferys Disclaimer Terms and Conditions	Component software Template detection: HHpred 1.51 Secondary structure prediction: Psi-pred 2.5 Disorder prediction: Disopred 2.4 Transmembrane prediction: Memsat_SVM Multi-template modelling and ab initio: Poing 1.0