Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	R	L	L	E	E	K	I	A	T	P	L	G	P	L	W	V	I	C	D	E	Q	F	R	L	R	A	V	E	W	E	E	Y	S	E	R	M	V	Q	L	L	D	I	H	Y	R	K	E	G	Y	E	R	I	S	A	T	N	P	G
Secondary structure
SS confidence
Disorder		?	?	?																																	?							?					?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	L	S	D	K	L	R	E	Y	F	A	G	N	L	S	I	I	D	T	L	P	T	A	T	G	G	T	P	F	Q	R	E	V	W	K	T	L	R	T	I	P	C	G	Q	V	M	H	Y	G	Q	L	A	E	Q	L	G	R	P	G	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.
Sequence		A	R	A	V	G	A	A	N	G	S	N	P	I	S	I	V	V	P	C	H	R	V	I	G	R	N	G	T	M	T	G	Y	A	G	G	V	Q	R	K	E	W	L	L	R	H	E	G	Y	L	L	L
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 1sfe chain A Region: 2 - 169 Aligned: 165 Modelled: 168 Confidence: 100.0% Identity: 32% PDB header:dna-binding protein Chain: A: PDB Molecule:ada o6-methylguanine-dna methyltransferase; PDBTitle: ada o6-methylguanine-dna methyltransferase from escherichia coli Phyre2 PDB 1wrj chain A Region: 4 - 170 Aligned: 148 Modelled: 153 Confidence: 100.0% Identity: 31% PDB header:transferase Chain: A: PDB Molecule:methylated-dna--protein-cysteine PDBTitle: crystal structure of o6-methylguanine methyltransferase2 from sulfolobus tokodaii Phyre2 PDB 1t39 chain A Region: 3 - 169 Aligned: 144 Modelled: 145 Confidence: 100.0% Identity: 35% PDB header:transferase/dna Chain: A: PDB Molecule:methylated-dna--protein-cysteine PDBTitle: human o6-alkylguanine-dna alkyltransferase covalently2 crosslinked to dna Phyre2 PDB 1mgt chain A Region: 17 - 168 Aligned: 149 Modelled: 152 Confidence: 100.0% Identity: 30% PDB header:transferase Chain: A: PDB Molecule:protein (o6-methylguanine-dna methyltransferase); PDBTitle: crystal structure of o6-methylguanine-dna methyltransferase from2 hyperthermophilic archaeon pyrococcus kodakaraensis strain kod1 Phyre2 PDB 2g7h chain A Region: 8 - 170 Aligned: 157 Modelled: 163 Confidence: 100.0% Identity: 21% PDB header:transferase Chain: A: PDB Molecule:methylated-dna--protein-cysteine PDBTitle: structure of an o6-methylguanine dna methyltransferase from2 methanococcus jannaschii (mj1529) Phyre2 PDB 1sfe chain A domain 1 Region: 86 - 168 Aligned: 83 Modelled: 83 Confidence: 100.0% Identity: 52% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Methylated DNA-protein cysteine methyltransferase, C-terminal domain Family: Methylated DNA-protein cysteine methyltransferase, C-terminal domain Phyre2 PDB 1qnt chain A domain 1 Region: 89 - 170 Aligned: 82 Modelled: 82 Confidence: 100.0% Identity: 50% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Methylated DNA-protein cysteine methyltransferase, C-terminal domain Family: Methylated DNA-protein cysteine methyltransferase, C-terminal domain Phyre2 PDB 3gx4 chain X Region: 84 - 170 Aligned: 87 Modelled: 87 Confidence: 100.0% Identity: 34% PDB header:dna binding protein/dna Chain: X: PDB Molecule:alkyltransferase-like protein 1; PDBTitle: crystal structure analysis of s. pombe atl in complex with dna Phyre2 PDB 1mgt chain A domain 1 Region: 87 - 168 Aligned: 79 Modelled: 82 Confidence: 100.0% Identity: 44% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Methylated DNA-protein cysteine methyltransferase, C-terminal domain Family: Methylated DNA-protein cysteine methyltransferase, C-terminal domain Phyre2 PDB 2kim chain A Region: 86 - 171 Aligned: 86 Modelled: 86 Confidence: 100.0% Identity: 31% PDB header:transferase Chain: A: PDB Molecule:o6-methylguanine-dna methyltransferase; PDBTitle: 1.7-mm microcryoprobe solution nmr structure of an o6-2 methylguanine dna methyltransferase family protein from3 vibrio parahaemolyticus. northeast structural genomics4 consortium target vpr247. Phyre2 PDB 1sfe chain A domain 2 Region: 2 - 85 Aligned: 81 Modelled: 84 Confidence: 99.0% Identity: 12% Fold: Ribonuclease H-like motif Superfamily: Methylated DNA-protein cysteine methyltransferase domain Family: Methylated DNA-protein cysteine methyltransferase domain Phyre2 PDB 1qnt chain A domain 2 Region: 3 - 91 Aligned: 80 Modelled: 81 Confidence: 96.2% Identity: 18% Fold: Ribonuclease H-like motif Superfamily: Methylated DNA-protein cysteine methyltransferase domain Family: Methylated DNA-protein cysteine methyltransferase domain Phyre2 PDB 1dpu chain A Region: 86 - 128 Aligned: 42 Modelled: 43 Confidence: 68.8% Identity: 19% 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) Phyre2 PDB 1dpu chain A Region: 86 - 128 Aligned: 42 Modelled: 43 Confidence: 68.8% Identity: 19% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: C-terminal domain of RPA32 Phyre2 PDB 2gxb chain A domain 1 Region: 90 - 119 Aligned: 30 Modelled: 30 Confidence: 64.6% Identity: 23% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Z-DNA binding domain Phyre2 PDB 1qgp chain A Region: 88 - 119 Aligned: 32 Modelled: 32 Confidence: 58.3% Identity: 22% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Z-DNA binding domain Phyre2 PDB 1stz chain A domain 1 Region: 85 - 130 Aligned: 46 Modelled: 46 Confidence: 57.8% Identity: 11% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Heat-inducible transcription repressor HrcA, N-terminal domain Phyre2 PDB 1qbj chain C Region: 90 - 119 Aligned: 30 Modelled: 30 Confidence: 54.2% Identity: 23% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Z-DNA binding domain Phyre2 PDB 1jhf chain A domain 1 Region: 85 - 130 Aligned: 45 Modelled: 46 Confidence: 40.7% Identity: 22% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: LexA repressor, N-terminal DNA-binding domain Phyre2 PDB 3k69 chain A Region: 87 - 153 Aligned: 59 Modelled: 67 Confidence: 37.9% Identity: 19% PDB header:transcription Chain: A: PDB Molecule:putative transcription regulator; PDBTitle: crystal structure of a putative transcriptional regulator (lp_0360)2 from lactobacillus plantarum at 1.95 a resolution Phyre2 1 c1sfeA_ 2 c1wrjA_ 3 c1t39A_ 4 c1mgtA_ 5 c2g7hA_ 6 d1sfea1 7 d1qnta1 8 c3gx4X_ 9 d1mgta1 10 c2kimA_ 11 d1sfea2 12 d1qnta2 13 c1dpuA_ 14 d1dpua_ 15 d2gxba1 16 d1qgpa_ 17 d1stza1 18 d1qbjc_ 19 d1jhfa1 20 c3k69A_ 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 c1sfeA_ 100.0 32 PDB header:dna-binding protein Chain: A: PDB Molecule:ada o6-methylguanine-dna methyltransferase; PDBTitle: ada o6-methylguanine-dna methyltransferase from escherichia coli 2 c1wrjA_ 100.0 31 PDB header:transferase Chain: A: PDB Molecule:methylated-dna--protein-cysteine PDBTitle: crystal structure of o6-methylguanine methyltransferase2 from sulfolobus tokodaii 3 c1t39A_ 100.0 35 PDB header:transferase/dna Chain: A: PDB Molecule:methylated-dna--protein-cysteine PDBTitle: human o6-alkylguanine-dna alkyltransferase covalently2 crosslinked to dna 4 c1mgtA_ 100.0 30 PDB header:transferase Chain: A: PDB Molecule:protein (o6-methylguanine-dna methyltransferase); PDBTitle: crystal structure of o6-methylguanine-dna methyltransferase from2 hyperthermophilic archaeon pyrococcus kodakaraensis strain kod1 5 c2g7hA_ 100.0 21 PDB header:transferase Chain: A: PDB Molecule:methylated-dna--protein-cysteine PDBTitle: structure of an o6-methylguanine dna methyltransferase from2 methanococcus jannaschii (mj1529) 6 d1sfea1 100.0 52 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Methylated DNA-protein cysteine methyltransferase, C-terminal domain Family:Methylated DNA-protein cysteine methyltransferase, C-terminal domain 7 d1qnta1 100.0 50 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Methylated DNA-protein cysteine methyltransferase, C-terminal domain Family:Methylated DNA-protein cysteine methyltransferase, C-terminal domain 8 c3gx4X_ 100.0 34 PDB header:dna binding protein/dna Chain: X: PDB Molecule:alkyltransferase-like protein 1; PDBTitle: crystal structure analysis of s. pombe atl in complex with dna 9 d1mgta1 100.0 44 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Methylated DNA-protein cysteine methyltransferase, C-terminal domain Family:Methylated DNA-protein cysteine methyltransferase, C-terminal domain 10 c2kimA_ 100.0 31 PDB header:transferase Chain: A: PDB Molecule:o6-methylguanine-dna methyltransferase; PDBTitle: 1.7-mm microcryoprobe solution nmr structure of an o6-2 methylguanine dna methyltransferase family protein from3 vibrio parahaemolyticus. northeast structural genomics4 consortium target vpr247. 11 d1sfea2 99.0 12 Fold:Ribonuclease H-like motif Superfamily:Methylated DNA-protein cysteine methyltransferase domain Family:Methylated DNA-protein cysteine methyltransferase domain 12 d1qnta2 96.2 18 Fold:Ribonuclease H-like motif Superfamily:Methylated DNA-protein cysteine methyltransferase domain Family:Methylated DNA-protein cysteine methyltransferase domain 13 c1dpuA_ 68.8 19 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) 14 d1dpua_ 68.8 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:C-terminal domain of RPA32 15 d2gxba1 64.6 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Z-DNA binding domain 16 d1qgpa_ 58.3 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Z-DNA binding domain 17 d1stza1 57.8 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Heat-inducible transcription repressor HrcA, N-terminal domain 18 d1qbjc_ 54.2 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Z-DNA binding domain 19 d1jhfa1 40.7 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:LexA repressor, N-terminal DNA-binding domain 20 c3k69A_ 37.9 19 PDB header:transcription Chain: A: PDB Molecule:putative transcription regulator; PDBTitle: crystal structure of a putative transcriptional regulator (lp_0360)2 from lactobacillus plantarum at 1.95 a resolution 21 d1tnsa_ not modelled 35.3 22 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:Excisionase-like 22 c3lwfD_ not modelled 33.1 16 PDB header:transcription regulator Chain: D: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator (np_470886.1)2 from listeria innocua at 2.06 a resolution 23 d1cf7b_ not modelled 23.1 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Cell cycle transcription factor e2f-dp 24 c2l01A_ not modelled 22.8 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of protein bvu3908 from bacteroides vulgatus,2 northeast structural genomics consortium target bvr153 25 d2cyya1 not modelled 21.7 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 26 d1bw6a_ not modelled 20.5 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Centromere-binding 27 c3c8lB_ not modelled 19.9 40 PDB header:unknown function Chain: B: PDB Molecule:ftsz-like protein of unknown function; PDBTitle: crystal structure of a ftsz-like protein of unknown function2 (npun_r1471) from nostoc punctiforme pcc 73102 at 1.22 a resolution 28 d1ub9a_ not modelled 17.8 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 29 d1or7a1 not modelled 17.6 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 30 c2l02B_ not modelled 17.4 27 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of protein bt2368 from bacteroides2 thetaiotaomicron, northeast structural genomics consortium target3 btr375 31 c2o8xA_ not modelled 17.2 14 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 32 c3k2zA_ not modelled 16.8 18 PDB header:hydrolase Chain: A: PDB Molecule:lexa repressor; PDBTitle: crystal structure of a lexa protein from thermotoga maritima 33 d1u0ma2 not modelled 16.7 13 Fold:Thiolase-like Superfamily:Thiolase-like Family:Chalcone synthase-like 34 d1mkma1 not modelled 15.8 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Transcriptional regulator IclR, N-terminal domain 35 c2cfxD_ not modelled 15.6 7 PDB header:transcription Chain: D: PDB Molecule:hth-type transcriptional regulator lrpc; PDBTitle: structure of b.subtilis lrpc 36 c3g5oA_ not modelled 15.2 13 PDB header:toxin/antitoxin Chain: A: PDB Molecule:uncharacterized protein rv2865; PDBTitle: the crystal structure of the toxin-antitoxin complex relbe2 (rv2865-2 2866) from mycobacterium tuberculosis 37 c3fvcA_ not modelled 14.2 29 PDB header:viral protein Chain: A: PDB Molecule:glycoprotein gp110; PDBTitle: crystal structure of a trimeric variant of the epstein-barr virus2 glycoprotein b 38 c2iv1J_ not modelled 14.1 16 PDB header:lyase Chain: J: PDB Molecule:cyanate hydratase; PDBTitle: site directed mutagenesis of key residues involved in the2 catalytic mechanism of cyanase 39 d1dwka1 not modelled 12.7 16 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Cyanase N-terminal domain 40 d2cfxa1 not modelled 12.3 7 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 41 d1ku7a_ not modelled 12.3 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 42 c2da5A_ not modelled 12.3 13 PDB header:dna binding protein Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 3; PDBTitle: solution structure of the second homeobox domain of zinc2 fingers and homeoboxes protein 3 (triple homeobox 13 protein) 43 c3r0aB_ not modelled 12.2 18 PDB header:transcription regulator Chain: B: PDB Molecule:putative transcriptional regulator; PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196) 44 c3hugA_ not modelled 12.2 17 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 45 d1s6la1 not modelled 11.9 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MerB N-terminal domain-like 46 c3t72o_ not modelled 11.6 13 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 47 c2dbbA_ not modelled 11.5 15 PDB header:transcriptional regulator Chain: A: PDB Molecule:putative hth-type transcriptional regulator ph0061; PDBTitle: crystal structure of ph0061 48 d1s7oa_ not modelled 11.5 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:YlxM/p13-like 49 d1ku3a_ not modelled 11.3 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 50 c2e1cA_ not modelled 11.1 10 PDB header:transcription/dna Chain: A: PDB Molecule:putative hth-type transcriptional regulator ph1519; PDBTitle: structure of putative hth-type transcriptional regulator ph1519/dna2 complex 51 d1dhsa_ not modelled 11.0 18 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Deoxyhypusine synthase, DHS 52 d1biaa1 not modelled 10.9 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Biotin repressor-like 53 c1mkmA_ not modelled 10.2 14 PDB header:transcription Chain: A: PDB Molecule:iclr transcriptional regulator; PDBTitle: crystal structure of the thermotoga maritima iclr 54 c1i1gA_ not modelled 9.7 15 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator lrpa; PDBTitle: crystal structure of the lrp-like transcriptional regulator from the2 archaeon pyrococcus furiosus 55 c3narA_ not modelled 9.4 25 PDB header:transcription Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 1; PDBTitle: crystal structure of zhx1 hd4 (zinc-fingers and homeoboxes protein 1,2 homeodomain 4) 56 c2y75F_ not modelled 9.2 10 PDB header:transcription Chain: F: PDB Molecule:hth-type transcriptional regulator cymr; PDBTitle: the structure of cymr (yrzc) the global cysteine regulator2 of b. subtilis 57 d1rp3a2 not modelled 9.2 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 58 d1xmka1 not modelled 9.1 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Z-DNA binding domain 59 d2guma1 not modelled 8.9 20 Fold:Viral glycoprotein ectodomain-like Superfamily:Viral glycoprotein ectodomain-like Family:Glycoprotein B-like 60 c3nw8B_ not modelled 8.8 20 PDB header:viral protein Chain: B: PDB Molecule:envelope glycoprotein b; PDBTitle: glycoprotein b from herpes simplex virus type 1, y179s mutant, high-ph 61 c2inpD_ not modelled 8.7 38 PDB header:oxidoreductase Chain: D: PDB Molecule:phenol hydroxylase component phl; PDBTitle: structure of the phenol hydroxylase-regulatory protein2 complex 62 c3i4pA_ not modelled 8.7 13 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, asnc family; PDBTitle: crystal structure of asnc family transcriptional regulator from2 agrobacterium tumefaciens 63 d2cg4a1 not modelled 8.6 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 64 d2f3ci1 not modelled 8.6 56 Fold:Kazal-type serine protease inhibitors Superfamily:Kazal-type serine protease inhibitors Family:Ovomucoid domain III-like 65 d2p7vb1 not modelled 8.5 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 66 d2hs5a1 not modelled 8.4 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:GntR-like transcriptional regulators 67 d1xsva_ not modelled 8.4 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:YlxM/p13-like 68 c2ia0A_ not modelled 8.3 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative hth-type transcriptional regulator pf0864; PDBTitle: transcriptional regulatory protein pf0864 from pyrococcus furiosus a2 member of the asnc family (pf0864) 69 d1wh5a_ not modelled 8.3 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 70 d1s7ea1 not modelled 8.0 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 71 c3ee6A_ not modelled 7.9 10 PDB header:hydrolase Chain: A: PDB Molecule:tripeptidyl-peptidase 1; PDBTitle: crystal structure analysis of tripeptidyl peptidase -i 72 d1i1ga1 not modelled 7.8 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 73 d3ctaa1 not modelled 7.5 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 74 d2ecba1 not modelled 7.5 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 75 d2hi3a1 not modelled 7.5 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 76 d1ku2a1 not modelled 7.4 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma3 domain 77 d1xd7a_ not modelled 7.4 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Transcriptional regulator Rrf2 78 c1rr7A_ not modelled 7.4 11 PDB header:transcription Chain: A: PDB Molecule:middle operon regulator; PDBTitle: crystal structure of the middle operon regulator protein of2 bacteriophage mu 79 d1rr7a_ not modelled 7.4 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Middle operon regulator, Mor 80 d1smyf2 not modelled 7.3 8 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 81 c3qmlC_ not modelled 7.3 21 PDB header:chaperone/protein transport Chain: C: PDB Molecule:nucleotide exchange factor sil1; PDBTitle: the structural analysis of sil1-bip complex reveals the mechanism for2 sil1 to function as a novel nucleotide exchange factor 82 d1nffa_ not modelled 7.2 11 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Tyrosine-dependent oxidoreductases 83 c1r22B_ not modelled 7.2 22 PDB header:transcription repressor Chain: B: PDB Molecule:transcriptional repressor smtb; PDBTitle: crystal structure of the cyanobacterial metallothionein2 repressor smtb (c14s/c61s/c121s mutant) in the zn2alpha5-3 form 84 d1ttya_ not modelled 7.2 7 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 85 c2e7xA_ not modelled 7.2 10 PDB header:transcription regulator Chain: A: PDB Molecule:150aa long hypothetical transcriptional regulator; PDBTitle: structure of the lrp/asnc like transcriptional regulator from2 sulfolobus tokodaii 7 complexed with its cognate ligand 86 c2l4aA_ not modelled 7.1 10 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 87 d1ig6a_ not modelled 6.9 8 Fold:DNA/RNA-binding 3-helical bundle Superfamily:ARID-like Family:ARID domain 88 c3eusB_ not modelled 6.8 26 PDB header:dna binding protein Chain: B: PDB Molecule:dna-binding protein; PDBTitle: the crystal structure of the dna binding protein from silicibacter2 pomeroyi 89 c3a01A_ not modelled 6.8 16 PDB header:gene regulation/dna Chain: A: PDB Molecule:homeodomain-containing protein; PDBTitle: crystal structure of aristaless and clawless homeodomains bound to dna 90 c3sztB_ not modelled 6.7 17 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 91 c2kxxA_ not modelled 6.6 36 PDB header:protein binding Chain: A: PDB Molecule:small protein a; PDBTitle: nmr structure of escherichia coli bame, a lipoprotein component of the2 beta-barrel assembly machinery complex 92 d1t1ea2 not modelled 6.4 6 Fold:Ferredoxin-like Superfamily:Protease propeptides/inhibitors Family:Subtilase propeptides/inhibitors 93 d1hlva1 not modelled 6.4 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Centromere-binding 94 d1rg6a_ not modelled 6.4 21 Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain 95 d1p2fa1 not modelled 6.3 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:PhoB-like 96 c1x3uA_ not modelled 6.1 16 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 97 c3frwF_ not modelled 6.0 14 PDB header:structural genomics, unknown function Chain: F: PDB Molecule:putative trp repressor protein; PDBTitle: crystal structure of putative trpr protein from ruminococcus obeum 98 c2oqgA_ not modelled 6.0 19 PDB header:transcription Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein; PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1 99 c3mq0A_ not modelled 6.0 13 PDB header:transcription repressor Chain: A: PDB Molecule:transcriptional repressor of the blcabc operon; PDBTitle: crystal structure of agobacterium tumefaciens repressor blcr

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