Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	T	P	L	R	Y	A	L	I	F	L	L	W	A	M	V	A	V	I	Y	A	P	L	I	P	A	A	L	T	L	I	S	P	A	L	S	L	T	H	W	Q	A	L	F	A	D	P	Q	L	P	Q	A	L	L	A	T	L	V	S
Secondary structure
SS confidence
Disorder		?	?	?																						?	?				?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	T	I	A	A	V	G	A	L	L	I	A	L	L	V	I	V	A	L	W	P	G	P	K	W	Q	R	M	C	A	R	L	P	W	L	L	A	I	P	H	V	A	F	A	T	S	A	L	L	L	F	A	D	G	G	L	L	Y	D	Y
Secondary structure
SS confidence
Disorder																																						?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		F	P	Y	F	T	P	P	M	D	R	F	G	I	G	L	G	L	T	L	A	V	K	E	S	A	F	L	L	W	I	L	A	A	V	L	S	E	K	W	L	L	Q	Q	V	I	V	L	D	S	L	G	Y	S	R	W	Q	C	L	N	W
Secondary structure
SS confidence
Disorder			?	?	?			?	?																													?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		L	L	L	P	S	V	A	P	A	L	A	M	A	M	L	A	I	V	A	W	S	L	S	V	V	D	V	A	I	I	L	G	P	G	N	P	P	T	L	A	V	I	S	W	Q	W	L	T	Q	G	D	I	D	Q	Q	T	K	G	A	L
Secondary structure
SS confidence
Disorder																																			?	?	?												?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		A	S	L	L	L	M	L	L	L	A	A	Y	V	L	L	S	Y	L	L	W	R	S	W	R	R	T	I	P	R	V	D	G	V	R	K	P	A	T	P	L	L	P	G	N	T	L	A	I	F	L	P	L	T	G	V	L	C	V	V	L
Secondary structure
SS confidence
Disorder																								?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		L	A	I	L	A	D	Q	S	T	I	N	S	E	A	L	I	N	S	L	T	M	G	L	V	A	T	F	I	A	L	L	L	L	L	L	W	L	E	W	G	P	Q	R	R	Q	L	W	L	W	L	P	I	L	L	P	A	L	P	L	V
Secondary structure
SS confidence
Disorder							?	?	?	?	?	?																												?					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		A	G	Q	Y	T	L	A	L	W	L	K	L	D	G	S	W	T	A	V	V	W	G	H	L	L	W	V	M	P	W	M	L	F	I	L	Q	P	A	W	Q	R	I	D	S	R	L	I	L	I	A	Q	T	L	G	W	S	R	A	K	I
Secondary structure
SS confidence
Disorder											?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		F	F	Y	V	K	C	P	L	M	L	R	P	V	L	I	A	F	A	V	G	F	A	V	G	I	A	Q	Y	M	P	T	L	W	L	G	A	G	R	F	P	T	L	T	T	E	A	V	A	L	S	S	G	G	S	N	G	I	L	A	A
Secondary structure
SS confidence
Disorder																																			?	?		?														?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.
Sequence		Q	A	L	W	Q	L	L	L	P	L	I	I	F	A	L	T	A	L	V	A	K	W	V	G	Y	V	R	Q	G	L	R
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 2r6g chain F Region: 62 - 495 Aligned: 415 Modelled: 417 Confidence: 100.0% Identity: 14% 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 3fh6 chain F Region: 1 - 265 Aligned: 264 Modelled: 264 Confidence: 100.0% Identity: 15% 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 3d31 chain C domain 1 Region: 4 - 253 Aligned: 245 Modelled: 250 Confidence: 100.0% Identity: 16% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain D Region: 4 - 253 Aligned: 245 Modelled: 250 Confidence: 100.0% Identity: 16% PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans Phyre2 PDB 2onk chain C domain 1 Region: 10 - 253 Aligned: 239 Modelled: 244 Confidence: 100.0% Identity: 14% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2onk chain C Region: 10 - 253 Aligned: 239 Modelled: 244 Confidence: 100.0% Identity: 14% 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 2r6g chain F domain 2 Region: 38 - 254 Aligned: 216 Modelled: 217 Confidence: 100.0% Identity: 14% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2r6g chain G domain 1 Region: 6 - 270 Aligned: 257 Modelled: 265 Confidence: 100.0% Identity: 20% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3dhw chain A domain 1 Region: 50 - 253 Aligned: 196 Modelled: 200 Confidence: 99.9% Identity: 18% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 1ntc chain A Region: 150 - 181 Aligned: 31 Modelled: 32 Confidence: 25.9% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 2hx6 chain A Region: 393 - 418 Aligned: 26 Modelled: 26 Confidence: 22.4% Identity: 12% PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease; PDBTitle: solution structure analysis of the phage t42 endoribonuclease regb Phyre2 PDB 1umq chain A Region: 393 - 424 Aligned: 32 Modelled: 32 Confidence: 20.7% 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: 393 - 424 Aligned: 32 Modelled: 32 Confidence: 20.7% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1iwg chain A domain 8 Region: 183 - 345 Aligned: 160 Modelled: 163 Confidence: 16.7% Identity: 9% Fold: Multidrug efflux transporter AcrB transmembrane domain Superfamily: Multidrug efflux transporter AcrB transmembrane domain Family: Multidrug efflux transporter AcrB transmembrane domain Phyre2 PDB 1fip chain A Region: 393 - 424 Aligned: 32 Modelled: 32 Confidence: 12.3% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1etx chain A Region: 150 - 181 Aligned: 31 Modelled: 32 Confidence: 11.8% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 3e7l chain D Region: 393 - 424 Aligned: 32 Modelled: 32 Confidence: 10.1% Identity: 13% 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 1eto chain B Region: 393 - 424 Aligned: 32 Modelled: 32 Confidence: 9.2% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1i1g chain A domain 1 Region: 151 - 181 Aligned: 31 Modelled: 31 Confidence: 7.2% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Lrp/AsnC-like transcriptional regulator N-terminal domain Phyre2 PDB 2ovi chain A Region: 151 - 179 Aligned: 29 Modelled: 29 Confidence: 7.1% Identity: 10% PDB header:ligand binding protein, metal transport Chain: A: PDB Molecule:hypothetical protein chux; PDBTitle: structure of the heme binding protein chux Phyre2 1 c2r6gF_ 2 c3fh6F_ 3 d3d31c1 4 c3d31D_ 5 d2onkc1 6 c2onkC_ 7 d2r6gf2 8 d2r6gg1 9 d3dhwa1 10 d1ntca_ 11 c2hx6A_ 12 c1umqA_ 13 d1umqa_ 14 d1iwga8 15 d1fipa_ 16 d1etxa_ 17 c3e7lD_ 18 d1etob_ 19 d1i1ga1 20 c2oviA_ 21 22 23 24 25

Detailed template information

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

1 c2r6gF_ 100.0 14 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 2 c3fh6F_ 100.0 15 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 3 d3d31c1 100.0 16 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 4 c3d31D_ 100.0 16 PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans 5 d2onkc1 100.0 14 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 6 c2onkC_ 100.0 14 PDB header:membrane protein Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease PDBTitle: abc transporter modbc in complex with its binding protein2 moda 7 d2r6gf2 100.0 14 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 8 d2r6gg1 100.0 20 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 9 d3dhwa1 99.9 18 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 10 d1ntca_ 25.9 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 11 c2hx6A_ 22.4 12 PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease; PDBTitle: solution structure analysis of the phage t42 endoribonuclease regb 12 c1umqA_ 20.7 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 13 d1umqa_ 20.7 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 14 d1iwga8 16.7 9 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 15 d1fipa_ 12.3 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 16 d1etxa_ 11.8 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 17 c3e7lD_ 10.1 13 PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain 18 d1etob_ 9.2 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 19 d1i1ga1 7.2 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 20 c2oviA_ 7.1 10 PDB header:ligand binding protein, metal transport Chain: A: PDB Molecule:hypothetical protein chux; PDBTitle: structure of the heme binding protein chux 21 d2cg4a1 not modelled 6.0 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 22 d1v54g_ not modelled 5.9 12 Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit VIa Family:Mitochondrial cytochrome c oxidase subunit VIa 23 d1cf7a_ not modelled 5.7 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Cell cycle transcription factor e2f-dp 24 d1g2ha_ not modelled 5.6 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 25 d2diia1 not modelled 5.5 11 Fold:BSD domain-like Superfamily:BSD domain-like Family:BSD domain

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