Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	K	V	L	L	S	H	P	P	R	P	A	S	H	N	S	S	R	A	M	V	W	V	R	K	N	L	F	S	S	W	S	N	S	L	L	T	I	G	C	I	W	L	M	W	E	L	I	P	P	L	L	N	W	A	F	L	Q	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		N	W	V	G	S	T	R	A	D	C	T	K	A	G	A	C	W	V	F	I	H	E	R	F	G	Q	F	M	Y	G	L	Y	P	H	D	Q	R	W	R	I	N	L	A	L	L	I	G	L	V	S	I	A	P	M	F	W	K	I	L	P
Secondary structure
SS confidence
Disorder											?	?																																																	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		H	R	G	R	Y	I	A	A	W	A	V	I	Y	P	L	I	V	W	W	L	M	Y	G	G	F	F	A	L	E	R	V	E	T	R	Q	W	G	G	L	T	L	T	L	I	I	A	S	V	G	I	A	G	A	L	P	W	G	I	L	L
Secondary structure
SS confidence
Disorder																								?	?			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		A	L	G	R	R	S	H	M	P	I	V	R	I	L	S	V	I	F	I	E	F	W	R	G	V	P	L	I	T	V	L	F	M	S	S	V	M	L	P	L	F	M	A	E	G	T	S	I	D	K	L	I	R	A	L	V	G	V	I	L
Secondary structure
SS confidence
Disorder																																												?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		F	Q	S	A	Y	V	A	E	V	V	R	G	G	L	Q	A	L	P	K	G	Q	Y	E	A	A	E	S	L	A	L	G	Y	W	K	T	Q	G	L	V	I	L	P	Q	A	L	K	L	V	I	P	G	L	V	N	T	I	I	A	L	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		K	D	T	S	L	V	I	I	I	G	L	F	D	L	F	S	S	V	Q	Q	A	T	V	D	P	A	W	L	G	M	S	T	E	G	Y	V	F	A	A	L	I	Y	W	I	F	C	F	S	M	S	R	Y	S	Q	Y	L	E	K	R	F
Secondary structure
SS confidence
Disorder																							?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		N	T	G	R	T	P	H
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 2onk chain C domain 1 Region: 99 - 356 Aligned: 244 Modelled: 258 Confidence: 99.9% Identity: 12% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2onk chain C Region: 99 - 356 Aligned: 244 Modelled: 258 Confidence: 99.9% Identity: 12% PDB header:membrane protein Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease PDBTitle: abc transporter modbc in complex with its binding protein2 moda Phyre2 PDB 3d31 chain D Region: 102 - 354 Aligned: 240 Modelled: 253 Confidence: 99.9% Identity: 16% PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans Phyre2 PDB 3d31 chain C domain 1 Region: 102 - 354 Aligned: 240 Modelled: 253 Confidence: 99.9% Identity: 16% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3dhw chain A domain 1 Region: 155 - 354 Aligned: 193 Modelled: 197 Confidence: 99.9% Identity: 17% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2r6g chain F Region: 138 - 352 Aligned: 215 Modelled: 215 Confidence: 99.9% Identity: 13% PDB header:hydrolase/transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: the crystal structure of the e. coli maltose transporter Phyre2 PDB 2r6g chain F domain 2 Region: 139 - 351 Aligned: 213 Modelled: 213 Confidence: 99.9% Identity: 15% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3fh6 chain F Region: 102 - 359 Aligned: 258 Modelled: 258 Confidence: 99.9% Identity: 14% PDB header:transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: crystal structure of the resting state maltose transporter from e.2 coli Phyre2 PDB 2r6g chain G domain 1 Region: 95 - 366 Aligned: 270 Modelled: 272 Confidence: 99.9% Identity: 13% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 1umq chain A Region: 248 - 279 Aligned: 32 Modelled: 32 Confidence: 72.0% Identity: 16% PDB header:dna-binding protein Chain: A: PDB Molecule:photosynthetic apparatus regulatory protein; PDBTitle: solution structure and dna binding of the effector domain2 from the global regulator prra(rega) from r. sphaeroides:3 insights into dna binding specificity Phyre2 PDB 1umq chain A Region: 248 - 279 Aligned: 32 Modelled: 32 Confidence: 72.0% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1fip chain A Region: 248 - 279 Aligned: 32 Modelled: 32 Confidence: 70.1% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1ntc chain A Region: 248 - 279 Aligned: 32 Modelled: 32 Confidence: 68.2% Identity: 19% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1eto chain B Region: 248 - 279 Aligned: 32 Modelled: 32 Confidence: 64.4% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 3e7l chain D Region: 248 - 279 Aligned: 32 Modelled: 32 Confidence: 60.0% Identity: 9% PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain Phyre2 PDB 1etx chain A Region: 248 - 279 Aligned: 32 Modelled: 32 Confidence: 57.1% Identity: 9% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1g2h chain A Region: 248 - 279 Aligned: 31 Modelled: 32 Confidence: 49.9% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 2cw1 chain A Region: 258 - 272 Aligned: 15 Modelled: 15 Confidence: 31.7% Identity: 40% PDB header:de novo protein Chain: A: PDB Molecule:sn4m; PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein Phyre2 PDB 1t98 chain A domain 1 Region: 20 - 30 Aligned: 11 Modelled: 11 Confidence: 23.3% Identity: 55% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: MukF N-terminal domain-like Phyre2 PDB 2auw chain B Region: 248 - 278 Aligned: 31 Modelled: 29 Confidence: 13.3% Identity: 16% PDB header:unknown function Chain: B: PDB Molecule:hypothetical protein ne0471; PDBTitle: crystal structure of putative dna binding protein ne0471 from2 nitrosomonas europaea atcc 19718 Phyre2 1 d2onkc1 2 c2onkC_ 3 c3d31D_ 4 d3d31c1 5 d3dhwa1 6 c2r6gF_ 7 d2r6gf2 8 c3fh6F_ 9 d2r6gg1 10 c1umqA_ 11 d1umqa_ 12 d1fipa_ 13 d1ntca_ 14 d1etob_ 15 c3e7lD_ 16 d1etxa_ 17 d1g2ha_ 18 c2cw1A_ 19 d1t98a1 20 c2auwB_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39

Detailed template information

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

1 d2onkc1 99.9 12 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 2 c2onkC_ 99.9 12 PDB header:membrane protein Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease PDBTitle: abc transporter modbc in complex with its binding protein2 moda 3 c3d31D_ 99.9 16 PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans 4 d3d31c1 99.9 16 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 5 d3dhwa1 99.9 17 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 6 c2r6gF_ 99.9 13 PDB header:hydrolase/transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: the crystal structure of the e. coli maltose transporter 7 d2r6gf2 99.9 15 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 8 c3fh6F_ 99.9 14 PDB header:transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: crystal structure of the resting state maltose transporter from e.2 coli 9 d2r6gg1 99.9 13 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 10 c1umqA_ 72.0 16 PDB header:dna-binding protein Chain: A: PDB Molecule:photosynthetic apparatus regulatory protein; PDBTitle: solution structure and dna binding of the effector domain2 from the global regulator prra(rega) from r. sphaeroides:3 insights into dna binding specificity 11 d1umqa_ 72.0 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 12 d1fipa_ 70.1 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 13 d1ntca_ 68.2 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 14 d1etob_ 64.4 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 15 c3e7lD_ 60.0 9 PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain 16 d1etxa_ 57.1 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 17 d1g2ha_ 49.9 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 18 c2cw1A_ 31.7 40 PDB header:de novo protein Chain: A: PDB Molecule:sn4m; PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein 19 d1t98a1 23.3 55 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MukF N-terminal domain-like 20 c2auwB_ 13.3 16 PDB header:unknown function Chain: B: PDB Molecule:hypothetical protein ne0471; PDBTitle: crystal structure of putative dna binding protein ne0471 from2 nitrosomonas europaea atcc 19718 21 d1g72b_ not modelled 11.7 33 Fold:Non-globular all-alpha subunits of globular proteins Superfamily:Methanol dehydrogenase subunit Family:Methanol dehydrogenase subunit 22 c3no7A_ not modelled 11.4 29 PDB header:dna binding protein Chain: A: PDB Molecule:putative plasmid related protein; PDBTitle: crystal structure of the centromere-binding protein parb from plasmid2 pcxc100 23 d1w6sb_ not modelled 11.3 42 Fold:Non-globular all-alpha subunits of globular proteins Superfamily:Methanol dehydrogenase subunit Family:Methanol dehydrogenase subunit 24 d2ad6b1 not modelled 11.2 33 Fold:Non-globular all-alpha subunits of globular proteins Superfamily:Methanol dehydrogenase subunit Family:Methanol dehydrogenase subunit 25 d3orca_ not modelled 11.0 29 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 26 d1lrwb_ not modelled 10.0 33 Fold:Non-globular all-alpha subunits of globular proteins Superfamily:Methanol dehydrogenase subunit Family:Methanol dehydrogenase subunit 27 c3ifuA_ not modelled 9.2 40 PDB header:transcription Chain: A: PDB Molecule:non-structural protein; PDBTitle: the crystal structure of porcine reproductive and2 respiratory syndrome virus (prrsv) leader protease nsp1 28 c2d7dB_ not modelled 9.0 16 PDB header:hydrolase/dna Chain: B: PDB Molecule:40-mer from uvrabc system protein b; PDBTitle: structural insights into the cryptic dna dependent atp-ase2 activity of uvrb 29 d2auwa1 not modelled 8.7 16 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE0471 C-terminal domain-like 30 c1pnbA_ not modelled 8.1 33 PDB header:seed storage protein Chain: A: PDB Molecule:napin bnib; PDBTitle: structure of napin bnib, nmr, 10 structures 31 c2jwaA_ not modelled 7.2 21 PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure 32 c2zihC_ not modelled 6.4 27 PDB header:protein transport Chain: C: PDB Molecule:vacuolar protein sorting-associated protein 74; PDBTitle: crystal structure of yeast vps74 33 c2ziiA_ not modelled 6.3 27 PDB header:protein transport Chain: A: PDB Molecule:vacuolar protein sorting-associated protein 74; PDBTitle: crystal structure of yeast vps74-n-term truncation variant 34 c2vn2B_ not modelled 5.7 31 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 35 d1ciia1 not modelled 5.7 17 Fold:Toxins' membrane translocation domains Superfamily:Colicin Family:Colicin 36 c3c4mC_ not modelled 5.5 50 PDB header:membrane protein Chain: C: PDB Molecule:parathyroid hormone; PDBTitle: structure of human parathyroid hormone in complex with the2 extracellular domain of its g-protein-coupled receptor (pth1r) 37 c3c4mD_ not modelled 5.5 50 PDB header:membrane protein Chain: D: PDB Molecule:parathyroid hormone; PDBTitle: structure of human parathyroid hormone in complex with the2 extracellular domain of its g-protein-coupled receptor (pth1r) 38 c2qksA_ not modelled 5.4 16 PDB header:metal transport Chain: A: PDB Molecule:kir3.1-prokaryotic kir channel chimera; PDBTitle: crystal structure of a kir3.1-prokaryotic kir channel chimera 39 c2hx6A_ not modelled 5.2 8 PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease; PDBTitle: solution structure analysis of the phage t42 endoribonuclease regb

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