Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	S	G	K	D	L	G	R	A	I	E	Q	A	I	N	K	K	I	A	S	G	S	V	K	S	K	A	E	V	A	R	H	F	K	V	Q	P	P	S	I	Y	D	W	I	K	K	G	S	I	S	K	D	K	L	P	E	L	W	R
Secondary structure
SS confidence
Disorder		?	?	?														?	?	?	?	?	?	?	?	?	?																							?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	F	S	D	V	V	G	P	E	H	W	G	L	N	E	Y	P	I	P	T	P	T	N	S	D	T	K	S	E	L	L	D	I	N	N	L	Y	Q	A	A	S	D	E	I	R	A	I	V	A	F	L	L	S	G	N	A	T	E	P	D
Secondary structure
SS confidence
Disorder																							?	?	?	?	?	?	?	?										?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.
Sequence		W	V	D	H	D	V	R	A	Y	I	A	A	M	E	M	K	V	G	K	Y	L	K	A	L	E	S	E	R	K	S	Q	N	I	T	K	T	G	T
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 3bd1 chain B Region: 10 - 69 Aligned: 54 Modelled: 60 Confidence: 96.5% Identity: 28% PDB header:transcription Chain: B: PDB Molecule:cro protein; PDBTitle: structure of the cro protein from putative prophage element xfaso 1 in2 xylella fastidiosa strain ann-1 Phyre2 PDB 3bdn chain B Region: 4 - 62 Aligned: 54 Modelled: 59 Confidence: 96.1% Identity: 13% PDB header:transcription/dna Chain: B: PDB Molecule:lambda repressor; PDBTitle: crystal structure of the lambda repressor Phyre2 PDB 2fjr chain B Region: 2 - 62 Aligned: 54 Modelled: 61 Confidence: 95.8% Identity: 24% PDB header:transcription regulator Chain: B: PDB Molecule:repressor protein ci; PDBTitle: crystal structure of bacteriophage 186 Phyre2 PDB 2kpj chain A Region: 3 - 80 Aligned: 73 Modelled: 78 Confidence: 95.1% Identity: 22% PDB header:transcription regulator Chain: A: PDB Molecule:sos-response transcriptional repressor, lexa; PDBTitle: solution structure of protein sos-response transcriptional2 repressor, lexa from eubacterium rectale. northeast3 structural genomics consortium target err9a Phyre2 PDB 3op9 chain A Region: 6 - 112 Aligned: 94 Modelled: 107 Confidence: 94.8% Identity: 14% PDB header:transcription regulator Chain: A: PDB Molecule:pli0006 protein; PDBTitle: crystal structure of transcriptional regulator from listeria innocua Phyre2 PDB 3dnv chain B Region: 1 - 62 Aligned: 57 Modelled: 62 Confidence: 93.9% Identity: 11% PDB header:transcription/dna Chain: B: PDB Molecule:hth-type transcriptional regulator hipb; PDBTitle: mdt protein Phyre2 PDB 1r69 chain A Region: 7 - 62 Aligned: 51 Modelled: 56 Confidence: 93.7% Identity: 18% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Phage repressors Phyre2 PDB 1sq8 chain A Region: 7 - 63 Aligned: 52 Modelled: 57 Confidence: 93.6% Identity: 23% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Phage repressors Phyre2 PDB 3clc chain C Region: 5 - 62 Aligned: 53 Modelled: 58 Confidence: 93.1% Identity: 9% PDB header:transcription regulator/dna Chain: C: PDB Molecule:regulatory protein; PDBTitle: crystal structure of the restriction-modification controller protein2 c.esp1396i tetramer in complex with its natural 35 base-pair operator Phyre2 PDB 2cro chain A Region: 7 - 62 Aligned: 51 Modelled: 56 Confidence: 93.0% Identity: 16% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Phage repressors Phyre2 PDB 3f52 chain A Region: 5 - 62 Aligned: 53 Modelled: 58 Confidence: 92.9% Identity: 21% PDB header:transcription activator Chain: A: PDB Molecule:clp gene regulator (clgr); PDBTitle: crystal structure of the clp gene regulator clgr from c. glutamicum Phyre2 PDB 1y9q chain A domain 1 Region: 5 - 62 Aligned: 53 Modelled: 58 Confidence: 92.9% Identity: 9% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Probable transcriptional regulator VC1968, N-terminal domain Phyre2 PDB 1lli chain B Region: 4 - 62 Aligned: 54 Modelled: 59 Confidence: 92.9% Identity: 13% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Phage repressors Phyre2 PDB 1b0n chain A domain 2 Region: 7 - 62 Aligned: 51 Modelled: 56 Confidence: 92.6% Identity: 20% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: SinR domain-like Phyre2 PDB 2a6c chain A domain 1 Region: 5 - 62 Aligned: 53 Modelled: 58 Confidence: 92.4% Identity: 15% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: NE1354 Phyre2 PDB 2ef8 chain A Region: 7 - 67 Aligned: 56 Modelled: 61 Confidence: 92.0% Identity: 16% PDB header:transcription regulator Chain: A: PDB Molecule:putative transcription factor; PDBTitle: crystal structure of c.ecot38is Phyre2 PDB 2b5a chain A domain 1 Region: 5 - 62 Aligned: 53 Modelled: 58 Confidence: 91.7% Identity: 19% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: SinR domain-like Phyre2 PDB 1adr chain A Region: 7 - 63 Aligned: 52 Modelled: 57 Confidence: 91.7% Identity: 17% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Phage repressors Phyre2 PDB 1y7y chain A domain 1 Region: 5 - 62 Aligned: 53 Modelled: 58 Confidence: 91.6% Identity: 11% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: SinR domain-like Phyre2 PDB 3ivp chain D Region: 5 - 62 Aligned: 53 Modelled: 58 Confidence: 91.4% Identity: 25% PDB header:dna binding protein Chain: D: PDB Molecule:putative transposon-related dna-binding protein; PDBTitle: the structure of a possible transposon-related dna-binding protein2 from clostridium difficile 630. Phyre2 1 c3bd1B_ 2 c3bdnB_ 3 c2fjrB_ 4 c2kpjA_ 5 c3op9A_ 6 c3dnvB_ 7 d1r69a_ 8 d1sq8a_ 9 c3clcC_ 10 d2croa_ 11 c3f52A_ 12 d1y9qa1 13 d1llib_ 14 d1b0na2 15 d2a6ca1 16 c2ef8A_ 17 d2b5aa1 18 d1adra_ 19 d1y7ya1 20 c3ivpD_ 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

Detailed template information

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

1 c3bd1B_ 96.5 28 PDB header:transcription Chain: B: PDB Molecule:cro protein; PDBTitle: structure of the cro protein from putative prophage element xfaso 1 in2 xylella fastidiosa strain ann-1 2 c3bdnB_ 96.1 13 PDB header:transcription/dna Chain: B: PDB Molecule:lambda repressor; PDBTitle: crystal structure of the lambda repressor 3 c2fjrB_ 95.8 24 PDB header:transcription regulator Chain: B: PDB Molecule:repressor protein ci; PDBTitle: crystal structure of bacteriophage 186 4 c2kpjA_ 95.1 22 PDB header:transcription regulator Chain: A: PDB Molecule:sos-response transcriptional repressor, lexa; PDBTitle: solution structure of protein sos-response transcriptional2 repressor, lexa from eubacterium rectale. northeast3 structural genomics consortium target err9a 5 c3op9A_ 94.8 14 PDB header:transcription regulator Chain: A: PDB Molecule:pli0006 protein; PDBTitle: crystal structure of transcriptional regulator from listeria innocua 6 c3dnvB_ 93.9 11 PDB header:transcription/dna Chain: B: PDB Molecule:hth-type transcriptional regulator hipb; PDBTitle: mdt protein 7 d1r69a_ 93.7 18 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 8 d1sq8a_ 93.6 23 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 9 c3clcC_ 93.1 9 PDB header:transcription regulator/dna Chain: C: PDB Molecule:regulatory protein; PDBTitle: crystal structure of the restriction-modification controller protein2 c.esp1396i tetramer in complex with its natural 35 base-pair operator 10 d2croa_ 93.0 16 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 11 c3f52A_ 92.9 21 PDB header:transcription activator Chain: A: PDB Molecule:clp gene regulator (clgr); PDBTitle: crystal structure of the clp gene regulator clgr from c. glutamicum 12 d1y9qa1 92.9 9 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Probable transcriptional regulator VC1968, N-terminal domain 13 d1llib_ 92.9 13 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 14 d1b0na2 92.6 20 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 15 d2a6ca1 92.4 15 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE1354 16 c2ef8A_ 92.0 16 PDB header:transcription regulator Chain: A: PDB Molecule:putative transcription factor; PDBTitle: crystal structure of c.ecot38is 17 d2b5aa1 91.7 19 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 18 d1adra_ 91.7 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 19 d1y7ya1 91.6 11 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 20 c3ivpD_ 91.4 25 PDB header:dna binding protein Chain: D: PDB Molecule:putative transposon-related dna-binding protein; PDBTitle: the structure of a possible transposon-related dna-binding protein2 from clostridium difficile 630. 21 d1x57a1 not modelled 91.2 19 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:EDF1-like 22 c2o38A_ not modelled 90.5 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: putative xre family transcriptional regulator 23 d2o38a1 not modelled 90.5 19 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE1354 24 d1lmb3_ not modelled 90.5 13 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 25 c2elhA_ not modelled 90.3 30 PDB header:dna binding protein Chain: A: PDB Molecule:cg11849-pa; PDBTitle: solution structure of the cenp-b n-terminal dna-binding2 domain of fruit fly distal antenna cg11849-pa 26 c3cecA_ not modelled 90.0 22 PDB header:transcription Chain: A: PDB Molecule:putative antidote protein of plasmid maintenance system; PDBTitle: crystal structure of a putative antidote protein of plasmid2 maintenance system (npun_f2943) from nostoc punctiforme pcc 73102 at3 1.60 a resolution 27 d1rzsa_ not modelled 89.8 19 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 28 c2ewtA_ not modelled 89.3 17 PDB header:dna binding protein Chain: A: PDB Molecule:putative dna-binding protein; PDBTitle: crystal structure of the dna-binding domain of bldd 29 d2r1jl1 not modelled 89.2 18 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 30 c3b7hA_ not modelled 89.2 7 PDB header:structural protein Chain: A: PDB Molecule:prophage lp1 protein 11; PDBTitle: crystal structure of the prophage lp1 protein 11 31 c3omtA_ not modelled 88.2 11 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: putative antitoxin component, chu_2935 protein, from xre family from2 prevotella buccae. 32 c2xcjB_ not modelled 87.6 10 PDB header:viral protein Chain: B: PDB Molecule:c protein; PDBTitle: crystal structure of p2 c, the immunity repressor of2 temperate e. coli phage p2 33 c1b0nA_ not modelled 87.4 20 PDB header:transcription regulator Chain: A: PDB Molecule:protein (sinr protein); PDBTitle: sinr protein/sini protein complex 34 d1utxa_ not modelled 87.3 21 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 35 d1bw6a_ not modelled 86.8 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Centromere-binding 36 c3f6wE_ not modelled 86.2 9 PDB header:dna binding protein Chain: E: PDB Molecule:xre-family like protein; PDBTitle: xre-family like protein from pseudomonas syringae pv. tomato str.2 dc3000 37 c3eusB_ not modelled 86.2 9 PDB header:dna binding protein Chain: B: PDB Molecule:dna-binding protein; PDBTitle: the crystal structure of the dna binding protein from silicibacter2 pomeroyi 38 d2icta1 not modelled 86.0 18 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 39 c3mlfC_ not modelled 85.3 19 PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator; PDBTitle: putative transcriptional regulator from staphylococcus aureus. 40 d1rioa_ not modelled 85.1 14 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 41 c3bs3A_ not modelled 84.8 19 PDB header:dna binding protein Chain: A: PDB Molecule:putative dna-binding protein; PDBTitle: crystal structure of a putative dna-binding protein from bacteroides2 fragilis 42 c1hlvA_ not modelled 83.9 24 PDB header:dna binding protein/dna Chain: A: PDB Molecule:major centromere autoantigen b; PDBTitle: crystal structure of cenp-b(1-129) complexed with the cenp-2 b box dna 43 c3t76A_ not modelled 82.9 13 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator vanug; PDBTitle: crystal structure of transcriptional regulator vanug, form ii 44 d1hlva1 not modelled 82.6 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Centromere-binding 45 c3k2zA_ not modelled 81.9 24 PDB header:hydrolase Chain: A: PDB Molecule:lexa repressor; PDBTitle: crystal structure of a lexa protein from thermotoga maritima 46 c2jvlA_ not modelled 81.4 21 PDB header:transcription Chain: A: PDB Molecule:trmbf1; PDBTitle: nmr structure of the c-terminal domain of mbf1 of trichoderma reesei 47 d1g3wa1 not modelled 80.7 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Iron-dependent repressor protein 48 d1j9ia_ not modelled 79.8 26 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:Terminase gpNU1 subunit domain 49 d2jn6a1 not modelled 79.8 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Cgl2762-like 50 d2isya1 not modelled 78.8 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Iron-dependent repressor protein 51 c3fmyA_ not modelled 76.5 18 PDB header:dna binding protein Chain: A: PDB Molecule:hth-type transcriptional regulator mqsa PDBTitle: structure of the c-terminal domain of the e. coli protein2 mqsa (ygit/b3021) 52 c3kxaD_ not modelled 76.2 19 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of ngo0477 from neisseria gonorrhoeae 53 d2ev0a1 not modelled 76.2 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Iron-dependent repressor protein 54 c1y9qA_ not modelled 74.1 11 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, hth_3 family; PDBTitle: crystal structure of hth_3 family transcriptional regulator2 from vibrio cholerae 55 c3trbA_ not modelled 72.0 22 PDB header:dna binding protein Chain: A: PDB Molecule:virulence-associated protein i; PDBTitle: structure of an addiction module antidote protein of a higa (higa)2 family from coxiella burnetii 56 c2ppxA_ not modelled 70.5 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein atu1735; PDBTitle: crystal structure of a hth xre-family like protein from agrobacterium2 tumefaciens 57 d2ppxa1 not modelled 70.5 10 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 58 c3lisB_ not modelled 69.1 15 PDB header:transcription Chain: B: PDB Molecule:csp231i c protein; PDBTitle: crystal structure of the restriction-modification controller protein2 c.csp231i (monoclinic form) 59 c2wusR_ not modelled 68.8 9 PDB header:structural protein Chain: R: PDB Molecule:putative uncharacterized protein; PDBTitle: bacterial actin mreb assembles in complex with cell shape2 protein rodz 60 c2ebyA_ not modelled 66.6 16 PDB header:transcription Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq; PDBTitle: crystal structure of a hypothetical protein from e. coli 61 c2bnoA_ not modelled 65.4 11 PDB header:oxidoreductase Chain: A: PDB Molecule:epoxidase; PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis. 62 d2ofya1 not modelled 64.1 13 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 63 c6paxA_ not modelled 61.4 19 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 64 c1u78A_ not modelled 58.5 19 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 65 d1pdnc_ not modelled 58.3 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain 66 c3fymA_ not modelled 58.1 11 PDB header:dna binding protein Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: the 1a structure of ymfm, a putative dna-binding membrane2 protein from staphylococcus aureus 67 d3ctaa1 not modelled 57.9 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 68 c2rn7A_ not modelled 55.6 14 PDB header:unknown function Chain: A: PDB Molecule:is629 orfa; PDBTitle: nmr solution structure of tnpe protein from shigella2 flexneri. northeast structural genomics target sfr125 69 c2hinA_ not modelled 54.9 32 PDB header:transcription Chain: A: PDB Molecule:repressor protein; PDBTitle: structure of n15 cro at 1.05 a: an ortholog of lambda cro2 with a completely different but equally effective3 dimerization mechanism 70 d1jhfa1 not modelled 54.7 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:LexA repressor, N-terminal DNA-binding domain 71 c1f5tA_ not modelled 52.2 15 PDB header:transcription/dna Chain: A: PDB Molecule:diphtheria toxin repressor; PDBTitle: diphtheria tox repressor (c102d mutant) complexed with2 nickel and dtxr consensus binding sequence 72 d2coba1 not modelled 51.9 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Psq domain 73 c2h09A_ not modelled 51.5 17 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator mntr; PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli 74 c3gn5B_ not modelled 47.8 13 PDB header:dna binding protein Chain: B: PDB Molecule:hth-type transcriptional regulator mqsa (ygit/b3021); PDBTitle: structure of the e. coli protein mqsa (ygit/b3021) 75 c1g3wA_ not modelled 45.3 14 PDB header:gene regulation Chain: A: PDB Molecule:diphtheria toxin repressor; PDBTitle: cd-cys102ser dtxr 76 d1d1la_ not modelled 44.2 22 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 77 d2cg4a1 not modelled 43.8 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 78 d6paxa1 not modelled 43.5 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain 79 d2cfxa1 not modelled 42.1 26 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 80 c3ctaA_ not modelled 41.7 19 PDB header:transferase Chain: A: PDB Molecule:riboflavin kinase; PDBTitle: crystal structure of riboflavin kinase from thermoplasma2 acidophilum 81 d1zs4a1 not modelled 38.3 26 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Bacteriophage CII protein 82 d4croa_ not modelled 37.4 22 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 83 d1nera_ not modelled 37.1 15 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 84 c2x4hA_ not modelled 36.4 20 PDB header:transcription Chain: A: PDB Molecule:hypothetical protein sso2273; PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus 85 c2pijB_ not modelled 36.3 17 PDB header:transcription Chain: B: PDB Molecule:prophage pfl 6 cro; PDBTitle: structure of the cro protein from prophage pfl 6 in pseudomonas2 fluorescens pf-5 86 c1fx7C_ not modelled 34.1 14 PDB header:signaling protein Chain: C: PDB Molecule:iron-dependent repressor ider; PDBTitle: crystal structure of the iron-dependent regulator (ider)2 from mycobacterium tuberculosis 87 d3orca_ not modelled 32.5 22 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 88 c2ao9H_ not modelled 31.8 19 PDB header:structural genomics, unknown function Chain: H: PDB Molecule:phage protein; PDBTitle: structural genomics, the crystal structure of a phage protein2 (phbc6a51) from bacillus cereus atcc 14579 89 c2o8xA_ not modelled 31.7 16 PDB header:transcription Chain: A: PDB Molecule:probable rna polymerase sigma-c factor; PDBTitle: crystal structure of the "-35 element" promoter recognition domain of2 mycobacterium tuberculosis sigc 90 d1jkva_ not modelled 30.9 17 Fold:Ferritin-like Superfamily:Ferritin-like Family:Manganese catalase (T-catalase) 91 d1k78a1 not modelled 30.4 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain 92 d1vz0a1 not modelled 29.6 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:KorB DNA-binding domain-like Family:KorB DNA-binding domain-like 93 c2it0A_ not modelled 27.9 14 PDB header:transcription/dna Chain: A: PDB Molecule:iron-dependent repressor ider; PDBTitle: crystal structure of a two-domain ider-dna complex crystal2 form ii 94 d1or7a1 not modelled 27.1 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 95 d1xsva_ not modelled 27.0 32 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:YlxM/p13-like 96 d1i1ga1 not modelled 26.7 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 97 c3i4pA_ not modelled 26.1 16 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, asnc family; PDBTitle: crystal structure of asnc family transcriptional regulator from2 agrobacterium tumefaciens 98 c3hefB_ not modelled 25.8 18 PDB header:viral protein Chain: B: PDB Molecule:gene 1 protein; PDBTitle: crystal structure of the bacteriophage sf6 terminase small2 subunit 99 c2l4aA_ not modelled 25.6 14 PDB header:dna binding protein Chain: A: PDB Molecule:leucine responsive regulatory protein; PDBTitle: nmr structure of the dna-binding domain of e.coli lrp 100 c2ev5B_ not modelled 25.6 23 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator mntr; PDBTitle: bacillus subtilis manganese transport regulator (mntr)2 bound to calcium 101 d1qnta2 not modelled 25.6 28 Fold:Ribonuclease H-like motif Superfamily:Methylated DNA-protein cysteine methyltransferase domain Family:Methylated DNA-protein cysteine methyltransferase domain 102 d1rp3a2 not modelled 25.0 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 103 c2cg4B_ not modelled 24.7 24 PDB header:transcription Chain: B: PDB Molecule:regulatory protein asnc; PDBTitle: structure of e.coli asnc 104 d2cyya1 not modelled 24.2 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 105 d2g7ga1 not modelled 23.5 27 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 106 c3tgnA_ not modelled 22.5 26 PDB header:transcription Chain: A: PDB Molecule:adc operon repressor adcr; PDBTitle: crystal structure of the zinc-dependent marr family transcriptional2 regulator adcr in the zn(ii)-bound state 107 d1xrsb2 not modelled 22.3 35 Fold:Dodecin subunit-like Superfamily:D-lysine 5,6-aminomutase beta subunit KamE, N-terminal domain Family:D-lysine 5,6-aminomutase beta subunit KamE, N-terminal domain 108 c2k27A_ not modelled 22.2 19 PDB header:transcription regulator Chain: A: PDB Molecule:paired box protein pax-8; PDBTitle: solution structure of human pax8 paired box domain 109 c3hugA_ not modelled 22.0 14 PDB header:transcription/membrane protein Chain: A: PDB Molecule:rna polymerase sigma factor; PDBTitle: crystal structure of mycobacterium tuberculosis anti-sigma factor rsla2 in complex with -35 promoter binding domain of sigl 110 c2vbzA_ not modelled 21.2 11 PDB header:dna-binding protein Chain: A: PDB Molecule:transcriptional regulatory protein; PDBTitle: feast or famine regulatory protein (rv3291c)from m.2 tuberculosis complexed with l-tryptophan 111 c3qsvD_ not modelled 20.8 11 PDB header:transcription/dna Chain: D: PDB Molecule:mothers against decapentaplegic homolog 4; PDBTitle: structural basis for dna recognition by constitutive smad4 mh1 dimers 112 c1z4hA_ not modelled 20.3 26 PDB header:protein binding, dna binding protein Chain: A: PDB Molecule:tor inhibition protein; PDBTitle: the response regulator tori belongs to a new family of2 atypical excisionase 113 d2vkea1 not modelled 20.3 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 114 d3broa1 not modelled 20.3 4 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators

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