Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	K	K	Q	S	S	T	P	H	D	A	L	F	K	L	F	L	R	Q	P	D	T	A	R	D	F	L	A	F	H	L	P	A	P	I	H	A	L	C	D	M	K	T	L	K	L	E	S	S	S	F	I	D	D	D	L	R	E	S
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																							?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Y	S	D	V	L	W	S	V	K	T	E	Q	G	P	G	Y	I	Y	C	L	I	E	H	Q	S	T	S	N	K	L	I	A	F	R	M	M	R	Y	A	I	A	A	M	Q	N	H	L	D	A	G	Y	K	T	L	P	M	V	V	P	L
Secondary structure
SS confidence
Disorder																																																	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	F	Y	H	G	I	E	S	P	Y	P	Y	S	L	C	W	L	D	C	F	A	D	P	K	L	A	R	Q	L	Y	A	S	A	F	P	L	I	D	V	T	V	M	P	D	D	E	I	M	Q	H	R	R	M	A	L	L	E	L	I	Q
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		K	H	I	R	Q	R	D	L	M	G	L	V	E	Q	M	A	C	L	L	S	S	G	Y	A	N	D	R	Q	I	K	G	L	F	N	Y	I	L	Q	T	G	D	A	V	R	F	N	D	F	I	D	G	V	A	E	R	S	P	K	H	K
Secondary structure
SS confidence
Disorder																																								?	?																?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.
Sequence		E	S	L	M	T	I	A	E	R	L	R	Q	E	G	E	Q	S	K	A	L	H	I	A	K	I	M	L	E	S	G	V	P	L	A	D	I	M	R	F	T	G	L	S	E	E	E	L	A	A	A	S	Q
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 1a9x chain A domain 1 Region: 195 - 292 Aligned: 98 Modelled: 98 Confidence: 90.0% Identity: 11% Fold: Carbamoyl phosphate synthetase, large subunit connection domain Superfamily: Carbamoyl phosphate synthetase, large subunit connection domain Family: Carbamoyl phosphate synthetase, large subunit connection domain Phyre2 PDB 2x48 chain B Region: 256 - 289 Aligned: 34 Modelled: 34 Confidence: 86.0% Identity: 18% PDB header:viral protein Chain: B: PDB Molecule:cag38821; PDBTitle: orf 55 from sulfolobus islandicus rudivirus 1 Phyre2 PDB 1p4w chain A Region: 258 - 289 Aligned: 32 Modelled: 32 Confidence: 64.9% Identity: 9% Fold: DNA/RNA-binding 3-helical bundle Superfamily: C-terminal effector domain of the bipartite response regulators Family: GerE-like (LuxR/UhpA family of transcriptional regulators) Phyre2 PDB 1s6l chain A domain 1 Region: 263 - 290 Aligned: 28 Modelled: 28 Confidence: 64.0% Identity: 21% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: MerB N-terminal domain-like Phyre2 PDB 2et1 chain A domain 1 Region: 270 - 291 Aligned: 22 Modelled: 22 Confidence: 61.1% Identity: 5% Fold: Double-stranded beta-helix Superfamily: RmlC-like cupins Family: Germin/Seed storage 7S protein Phyre2 PDB 1fse chain A Region: 258 - 289 Aligned: 32 Modelled: 32 Confidence: 60.2% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: C-terminal effector domain of the bipartite response regulators Family: GerE-like (LuxR/UhpA family of transcriptional regulators) Phyre2 PDB 1vz0 chain A domain 1 Region: 258 - 290 Aligned: 33 Modelled: 33 Confidence: 57.4% Identity: 21% Fold: DNA/RNA-binding 3-helical bundle Superfamily: KorB DNA-binding domain-like Family: KorB DNA-binding domain-like Phyre2 PDB 1x3u chain A Region: 259 - 289 Aligned: 31 Modelled: 31 Confidence: 54.9% Identity: 13% PDB header:transcription Chain: A: PDB Molecule:transcriptional regulatory protein fixj; PDBTitle: solution structure of the c-terminal transcriptional2 activator domain of fixj from sinorhizobium melilot Phyre2 PDB 1yio chain A domain 1 Region: 258 - 289 Aligned: 32 Modelled: 32 Confidence: 54.6% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: C-terminal effector domain of the bipartite response regulators Family: GerE-like (LuxR/UhpA family of transcriptional regulators) Phyre2 PDB 3fym chain A Region: 267 - 290 Aligned: 24 Modelled: 24 Confidence: 53.8% Identity: 25% 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 Phyre2 PDB 2jpc chain A Region: 259 - 289 Aligned: 31 Modelled: 31 Confidence: 52.9% Identity: 10% PDB header:dna binding protein Chain: A: PDB Molecule:ssrb; PDBTitle: ssrb dna binding protein Phyre2 PDB 1a04 chain A domain 1 Region: 258 - 289 Aligned: 32 Modelled: 32 Confidence: 52.5% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: C-terminal effector domain of the bipartite response regulators Family: GerE-like (LuxR/UhpA family of transcriptional regulators) Phyre2 PDB 2krf chain B Region: 258 - 289 Aligned: 32 Modelled: 32 Confidence: 52.2% Identity: 16% PDB header:transcription Chain: B: PDB Molecule:transcriptional regulatory protein coma; PDBTitle: nmr solution structure of the dna binding domain of competence protein2 a Phyre2 PDB 1zlj chain E Region: 259 - 289 Aligned: 31 Modelled: 31 Confidence: 49.8% Identity: 16% PDB header:transcription Chain: E: PDB Molecule:dormancy survival regulator; PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic2 response regulator dosr c-terminal domain Phyre2 PDB 1h0m chain D Region: 258 - 289 Aligned: 32 Modelled: 32 Confidence: 49.7% Identity: 9% PDB header:transcription/dna Chain: D: PDB Molecule:transcriptional activator protein trar; PDBTitle: three-dimensional structure of the quorum sensing protein2 trar bound to its autoinducer and to its target dna Phyre2 PDB 2gm4 chain B Region: 223 - 292 Aligned: 70 Modelled: 70 Confidence: 48.6% Identity: 11% PDB header:recombination, dna Chain: B: PDB Molecule:transposon gamma-delta resolvase; PDBTitle: an activated, tetrameric gamma-delta resolvase: hin chimaera bound to2 cleaved dna Phyre2 PDB 1trr chain A Region: 258 - 287 Aligned: 30 Modelled: 30 Confidence: 48.4% Identity: 10% Fold: DNA/RNA-binding 3-helical bundle Superfamily: TrpR-like Family: Trp repressor, TrpR Phyre2 PDB 1j58 chain A Region: 270 - 292 Aligned: 23 Modelled: 22 Confidence: 48.4% Identity: 13% Fold: Double-stranded beta-helix Superfamily: RmlC-like cupins Family: Germin/Seed storage 7S protein Phyre2 PDB 1l0o chain C Region: 272 - 290 Aligned: 19 Modelled: 19 Confidence: 48.3% Identity: 26% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors Family: Sigma4 domain Phyre2 PDB 1l0o chain C Region: 272 - 290 Aligned: 19 Modelled: 19 Confidence: 48.3% Identity: 26% PDB header:protein binding Chain: C: PDB Molecule:sigma factor; PDBTitle: crystal structure of the bacillus stearothermophilus anti-2 sigma factor spoiiab with the sporulation sigma factor3 sigmaf Phyre2 1 d1a9xa1 2 c2x48B_ 3 d1p4wa_ 4 d1s6la1 5 d2et1a1 6 d1fsea_ 7 d1vz0a1 8 c1x3uA_ 9 d1yioa1 10 c3fymA_ 11 c2jpcA_ 12 d1a04a1 13 c2krfB_ 14 c1zljE_ 15 c1h0mD_ 16 c2gm4B_ 17 d1trra_ 18 d1j58a_ 19 d1l0oc_ 20 c1l0oC_ 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

Detailed template information

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

1 d1a9xa1 90.0 11 Fold:Carbamoyl phosphate synthetase, large subunit connection domain Superfamily:Carbamoyl phosphate synthetase, large subunit connection domain Family:Carbamoyl phosphate synthetase, large subunit connection domain 2 c2x48B_ 86.0 18 PDB header:viral protein Chain: B: PDB Molecule:cag38821; PDBTitle: orf 55 from sulfolobus islandicus rudivirus 1 3 d1p4wa_ 64.9 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 4 d1s6la1 64.0 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MerB N-terminal domain-like 5 d2et1a1 61.1 5 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein 6 d1fsea_ 60.2 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 7 d1vz0a1 57.4 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:KorB DNA-binding domain-like Family:KorB DNA-binding domain-like 8 c1x3uA_ 54.9 13 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulatory protein fixj; PDBTitle: solution structure of the c-terminal transcriptional2 activator domain of fixj from sinorhizobium melilot 9 d1yioa1 54.6 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 10 c3fymA_ 53.8 25 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 11 c2jpcA_ 52.9 10 PDB header:dna binding protein Chain: A: PDB Molecule:ssrb; PDBTitle: ssrb dna binding protein 12 d1a04a1 52.5 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 13 c2krfB_ 52.2 16 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulatory protein coma; PDBTitle: nmr solution structure of the dna binding domain of competence protein2 a 14 c1zljE_ 49.8 16 PDB header:transcription Chain: E: PDB Molecule:dormancy survival regulator; PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic2 response regulator dosr c-terminal domain 15 c1h0mD_ 49.7 9 PDB header:transcription/dna Chain: D: PDB Molecule:transcriptional activator protein trar; PDBTitle: three-dimensional structure of the quorum sensing protein2 trar bound to its autoinducer and to its target dna 16 c2gm4B_ 48.6 11 PDB header:recombination, dna Chain: B: PDB Molecule:transposon gamma-delta resolvase; PDBTitle: an activated, tetrameric gamma-delta resolvase: hin chimaera bound to2 cleaved dna 17 d1trra_ 48.4 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Trp repressor, TrpR 18 d1j58a_ 48.4 13 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein 19 d1l0oc_ 48.3 26 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 20 c1l0oC_ 48.3 26 PDB header:protein binding Chain: C: PDB Molecule:sigma factor; PDBTitle: crystal structure of the bacillus stearothermophilus anti-2 sigma factor spoiiab with the sporulation sigma factor3 sigmaf 21 c2phcB_ not modelled 47.8 19 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein ph0987; PDBTitle: crystal structure of conserved uncharacterized protein ph0987 from2 pyrococcus horikoshii 22 d1fxza2 not modelled 47.6 14 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein 23 c2q0oA_ not modelled 47.4 9 PDB header:transcription Chain: A: PDB Molecule:probable transcriptional activator protein trar; PDBTitle: crystal structure of an anti-activation complex in bacterial quorum2 sensing 24 d1jhga_ not modelled 45.6 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:TrpR-like Family:Trp repressor, TrpR 25 c2rnjA_ not modelled 45.6 6 PDB header:transcription Chain: A: PDB Molecule:response regulator protein vrar; PDBTitle: nmr structure of the s. aureus vrar dna binding domain 26 c1r71B_ not modelled 44.9 18 PDB header:transcription/dna Chain: B: PDB Molecule:transcriptional repressor protein korb; PDBTitle: crystal structure of the dna binding domain of korb in2 complex with the operator dna 27 d1ttya_ not modelled 43.1 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 28 c3cloC_ not modelled 42.6 9 PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator containing a2 luxr dna binding domain (np_811094.1) from bacteroides3 thetaiotaomicron vpi-5482 at 2.04 a resolution 29 c2wusR_ not modelled 42.1 25 PDB header:structural protein Chain: R: PDB Molecule:putative uncharacterized protein; PDBTitle: bacterial actin mreb assembles in complex with cell shape2 protein rodz 30 c3sztB_ not modelled 42.0 6 PDB header:transcription Chain: B: PDB Molecule:quorum-sensing control repressor; PDBTitle: quorum sensing control repressor, qscr, bound to n-3-oxo-dodecanoyl-l-2 homoserine lactone 31 d1r71a_ not modelled 41.9 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:KorB DNA-binding domain-like Family:KorB DNA-binding domain-like 32 d1ku3a_ not modelled 41.8 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 33 c3mmlD_ not modelled 41.6 29 PDB header:hydrolase Chain: D: PDB Molecule:allophanate hydrolase subunit 1; PDBTitle: allophanate hydrolase complex from mycobacterium smegmatis, msmeg0435-2 msmeg0436 34 d1od5a2 not modelled 41.3 9 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein 35 d1ic8a2 not modelled 39.8 22 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:POU-specific domain 36 d1fxza1 not modelled 38.4 13 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein 37 d1od5a1 not modelled 38.2 13 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein 38 c2vqaC_ not modelled 37.1 13 PDB header:metal-binding protein Chain: C: PDB Molecule:sll1358 protein; PDBTitle: protein-folding location can regulate mn versus cu- or zn-2 binding. crystal structure of mnca. 39 d1ku2a1 not modelled 36.3 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma3 domain 40 d1bl0a2 not modelled 35.6 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:AraC type transcriptional activator 41 d1ku7a_ not modelled 35.6 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 42 c3trbA_ not modelled 35.4 7 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 43 d1q1ha_ not modelled 35.1 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Transcription factor E/IIe-alpha, N-terminal domain 44 c1q1hA_ not modelled 35.1 13 PDB header:transcription Chain: A: PDB Molecule:transcription factor e; PDBTitle: an extended winged helix domain in general transcription2 factor e/iie alpha 45 c2r0qF_ not modelled 34.2 16 PDB header:recombination/dna Chain: F: PDB Molecule:putative transposon tn552 dna-invertase bin3; PDBTitle: crystal structure of a serine recombinase- dna regulatory2 complex 46 c3qp5C_ not modelled 33.2 13 PDB header:transcription Chain: C: PDB Molecule:cvir transcriptional regulator; PDBTitle: crystal structure of cvir bound to antagonist chlorolactone (cl) 47 c3kglB_ not modelled 32.8 30 PDB header:plant protein Chain: B: PDB Molecule:cruciferin; PDBTitle: crystal structure of procruciferin, 11s globulin from2 brassica napus 48 d1l3la1 not modelled 32.4 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 49 d2p7vb1 not modelled 31.7 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 50 c2o8xA_ not modelled 31.4 12 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 51 c1m6vE_ not modelled 30.5 12 PDB header:ligase Chain: E: PDB Molecule:carbamoyl phosphate synthetase large chain; PDBTitle: crystal structure of the g359f (small subunit) point mutant of2 carbamoyl phosphate synthetase 52 c1u78A_ not modelled 29.6 15 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 53 c3b7hA_ not modelled 29.2 13 PDB header:structural protein Chain: A: PDB Molecule:prophage lp1 protein 11; PDBTitle: crystal structure of the prophage lp1 protein 11 54 c3t72o_ not modelled 29.1 9 PDB header:transcription/dna Chain: O: PDB Molecule:pho box dna (strand 1); PDBTitle: phob(e)-sigma70(4)-(rnap-betha-flap-tip-helix)-dna transcription2 activation sub-complex 55 c3d6zA_ not modelled 28.9 31 PDB header:transcription regulator/dna Chain: A: PDB Molecule:multidrug-efflux transporter 1 regulator; PDBTitle: crystal structure of r275e mutant of bmrr bound to dna and rhodamine 56 c2d5fB_ not modelled 28.8 9 PDB header:plant protein Chain: B: PDB Molecule:glycinin a3b4 subunit; PDBTitle: crystal structure of recombinant soybean proglycinin a3b4 subunit, its2 comparison with mature glycinin a3b4 subunit, responsible for hexamer3 assembly 57 c3oepA_ not modelled 28.6 32 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative uncharacterized protein ttha0988; PDBTitle: crystal structure of ttha0988 in space group p43212 58 d5crxb2 not modelled 28.6 37 Fold:DNA breaking-rejoining enzymes Superfamily:DNA breaking-rejoining enzymes Family:Lambda integrase-like, catalytic core 59 c3mzyA_ not modelled 28.5 10 PDB header:rna binding protein Chain: A: PDB Molecule:rna polymerase sigma-h factor; PDBTitle: the crystal structure of the rna polymerase sigma-h factor from2 fusobacterium nucleatum to 2.5a 60 d1dpua_ not modelled 27.9 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:C-terminal domain of RPA32 61 c1dpuA_ not modelled 27.9 18 PDB header:dna binding protein Chain: A: PDB Molecule:replication protein a (rpa32) c-terminal domain; PDBTitle: solution structure of the c-terminal domain of human rpa322 complexed with ung2(73-88) 62 c3t76A_ not modelled 26.8 13 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator vanug; PDBTitle: crystal structure of transcriptional regulator vanug, form ii 63 c3c3vA_ not modelled 26.7 17 PDB header:allergen Chain: A: PDB Molecule:arachin arah3 isoform; PDBTitle: crystal structure of peanut major allergen ara h 3 64 d2ga1a1 not modelled 26.4 26 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Alr1493-like 65 c3c3wB_ not modelled 26.2 16 PDB header:transcription Chain: B: PDB Molecule:two component transcriptional regulatory protein devr; PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic response2 regulator dosr 66 d1or7a1 not modelled 26.2 6 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 67 d1smyf2 not modelled 26.1 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 68 d1d5ya1 not modelled 26.0 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:AraC type transcriptional activator 69 c3kscD_ not modelled 25.2 17 PDB header:plant protein Chain: D: PDB Molecule:lega class; PDBTitle: crystal structure of pea prolegumin, an 11s seed globulin2 from pisum sativum l. 70 c3ehkC_ not modelled 25.1 13 PDB header:plant protein Chain: C: PDB Molecule:prunin; PDBTitle: crystal structure of pru du amandin, an allergenic protein2 from prunus dulcis 71 d1g8ma1 not modelled 25.0 30 Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Inosicase 72 d1rp3a1 not modelled 24.3 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma3 domain 73 d2iv2x2 not modelled 24.2 27 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3 Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3 Family:Formate dehydrogenase/DMSO reductase, domains 1-3 74 c1fxzC_ not modelled 23.5 13 PDB header:plant protein Chain: C: PDB Molecule:glycinin g1; PDBTitle: crystal structure of soybean proglycinin a1ab1b homotrimer 75 d1r8ea1 not modelled 23.4 31 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 76 d1q08a_ not modelled 23.4 15 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 77 d2a6ca1 not modelled 23.3 8 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE1354 78 c1cauB_ not modelled 23.3 17 PDB header:seed storage protein Chain: B: PDB Molecule:canavalin; PDBTitle: determination of three crystal structures of canavalin by molecular2 replacement 79 d1k1va_ not modelled 23.1 27 Fold:A DNA-binding domain in eukaryotic transcription factors Superfamily:A DNA-binding domain in eukaryotic transcription factors Family:A DNA-binding domain in eukaryotic transcription factors 80 c1vz0B_ not modelled 22.8 21 PDB header:nuclear protein Chain: B: PDB Molecule:chromosome partitioning protein parb; PDBTitle: chromosome segregation protein spo0j from thermus2 thermophilus 81 c2e9qA_ not modelled 22.7 23 PDB header:plant protein Chain: A: PDB Molecule:11s globulin subunit beta; PDBTitle: recombinant pro-11s globulin of pumpkin 82 d1s7oa_ not modelled 22.2 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:YlxM/p13-like 83 d1pkxa1 not modelled 21.6 30 Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Inosicase 84 c3hugA_ not modelled 21.5 15 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 85 d1ijwc_ not modelled 21.3 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Recombinase DNA-binding domain 86 c2cauA_ not modelled 21.0 17 PDB header:plant protein Chain: A: PDB Molecule:protein (canavalin); PDBTitle: canavalin from jack bean 87 d1h0ha2 not modelled 20.7 18 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3 Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3 Family:Formate dehydrogenase/DMSO reductase, domains 1-3 88 c3frwF_ not modelled 20.4 23 PDB header:structural genomics, unknown function Chain: F: PDB Molecule:putative trp repressor protein; PDBTitle: crystal structure of putative trpr protein from ruminococcus obeum 89 c1dgrW_ not modelled 20.2 17 PDB header:plant protein Chain: W: PDB Molecule:canavalin; PDBTitle: refined crystal structure of canavalin from jack bean 90 d1hcra_ not modelled 20.2 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Recombinase DNA-binding domain 91 c3klnC_ not modelled 20.1 19 PDB header:transcription Chain: C: PDB Molecule:transcriptional regulator, luxr family; PDBTitle: vibrio cholerae vpst 92 c2k9lA_ not modelled 19.8 24 PDB header:transcription Chain: A: PDB Molecule:rna polymerase sigma factor rpon; PDBTitle: structure of the core binding domain of sigma54 93 d1y9qa1 not modelled 19.1 19 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Probable transcriptional regulator VC1968, N-terminal domain 94 c2q1zA_ not modelled 18.9 9 PDB header:transcription Chain: A: PDB Molecule:rpoe, ecf sige; PDBTitle: crystal structure of rhodobacter sphaeroides sige in complex with the2 anti-sigma chrr 95 d1kqfa2 not modelled 18.9 5 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3 Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3 Family:Formate dehydrogenase/DMSO reductase, domains 1-3 96 c3clcC_ not modelled 18.8 26 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 97 d1uija2 not modelled 18.8 4 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein 98 d1bl0a1 not modelled 18.8 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:AraC type transcriptional activator 99 d1xsva_ not modelled 18.7 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:YlxM/p13-like

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

---

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