Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	M	S	S	I	P	S	S	S	Q	S	G	K	L	Y	G	W	V	E	R	I	G	N	K	V	P	H	P	F	L	L	F	I	Y	L	I	I	V	L	M	V	T	T	A	I	L	S	A	F	G	V	S	A	K	N	P	T	D	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?																																															?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	P	V	V	V	K	N	L	L	S	V	E	G	L	H	W	F	L	P	N	V	I	K	N	F	S	G	F	A	P	L	G	A	I	L	A	L	V	L	G	A	G	L	A	E	R	V	G	L	L	P	A	L	M	V	K	M	A	S	H
Secondary structure
SS confidence
Disorder		?				?																		?	?	?																																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	N	A	R	Y	A	S	Y	M	V	L	F	I	A	F	F	S	H	I	S	S	D	A	A	L	V	I	M	P	P	M	G	A	L	I	F	L	A	V	G	R	H	P	V	A	G	L	L	A	A	I	A	G	V	G	C	G	F	T	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		N	L	L	I	V	T	T	D	V	L	L	S	G	I	S	T	E	A	A	A	A	F	N	P	Q	M	H	V	S	V	I	D	N	W	Y	F	M	A	S	S	V	V	V	L	T	I	V	G	G	L	I	T	D	K	I	I	E	P	R	L
Secondary structure
SS confidence
Disorder						?	?	?	?	?			?									?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		G	Q	W	Q	G	N	S	D	E	K	L	Q	T	L	T	E	S	Q	R	F	G	L	R	I	A	G	V	V	S	L	L	F	I	A	A	I	A	L	M	V	I	P	Q	N	G	I	L	R	D	P	I	N	H	T	V	M	P	S	P	F
Secondary structure
SS confidence
Disorder			?	?	?	?	?	?	?	?	?	?	?	?	?	?																																					?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		I	K	G	I	V	P	L	I	I	L	F	F	F	V	V	S	L	A	Y	G	I	A	T	R	T	I	R	R	Q	A	D	L	P	H	L	M	I	E	P	M	K	E	M	A	G	F	I	V	M	V	F	P	L	A	Q	F	V	A	M	F
Secondary structure
SS confidence
Disorder																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		N	W	S	N	M	G	K	F	I	A	V	G	L	T	D	I	L	E	S	S	G	L	S	G	I	P	A	F	V	G	L	A	L	L	S	S	F	L	C	M	F	I	A	S	G	S	A	I	W	S	I	L	A	P	I	F	V	P	M	F
Secondary structure
SS confidence
Disorder																			?		?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		M	L	L	G	F	H	P	A	F	A	Q	I	L	F	R	I	A	D	S	S	V	L	P	L	A	P	V	S	P	F	V	P	L	F	L	G	F	L	Q	R	Y	K	P	D	A	K	L	G	T	Y	Y	S	L	V	L	P	Y	P	L	I
Secondary structure
SS confidence
Disorder				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.
Sequence		F	L	V	V	W	L	L	M	L	L	A	W	Y	L	V	G	L	P	I	G	P	G	I	Y	P	R	L	S
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 3qnq chain D Region: 107 - 248 Aligned: 139 Modelled: 142 Confidence: 33.8% Identity: 12% PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system Phyre2 PDB 3b9y chain A Region: 127 - 265 Aligned: 119 Modelled: 122 Confidence: 17.1% Identity: 10% PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein Phyre2 PDB 1iuq chain A Region: 45 - 79 Aligned: 33 Modelled: 34 Confidence: 13.6% Identity: 12% Fold: Glycerol-3-phosphate (1)-acyltransferase Superfamily: Glycerol-3-phosphate (1)-acyltransferase Family: Glycerol-3-phosphate (1)-acyltransferase Phyre2 PDB 2b0l chain A domain 1 Region: 419 - 435 Aligned: 17 Modelled: 17 Confidence: 10.7% Identity: 12% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: CodY HTH domain Phyre2 PDB 2voy chain E Region: 29 - 45 Aligned: 17 Modelled: 17 Confidence: 10.6% Identity: 29% PDB header:hydrolase Chain: E: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus Phyre2 PDB 2nww chain A domain 1 Region: 190 - 499 Aligned: 275 Modelled: 285 Confidence: 10.4% Identity: 16% Fold: Proton glutamate symport protein Superfamily: Proton glutamate symport protein Family: Proton glutamate symport protein Phyre2 PDB 3hd6 chain A Region: 127 - 258 Aligned: 118 Modelled: 132 Confidence: 10.3% Identity: 18% PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg Phyre2 PDB 2pmz chain L Region: 19 - 29 Aligned: 11 Modelled: 11 Confidence: 8.9% Identity: 36% PDB header:translation, transferase Chain: L: PDB Molecule:dna-directed rna polymerase subunit l; PDBTitle: archaeal rna polymerase from sulfolobus solfataricus Phyre2 PDB 3h0g chain K Region: 19 - 29 Aligned: 11 Modelled: 11 Confidence: 8.9% Identity: 64% PDB header:transcription Chain: K: PDB Molecule:dna-directed rna polymerase ii subunit rpb11; PDBTitle: rna polymerase ii from schizosaccharomyces pombe Phyre2 PDB 1rzs chain A Region: 419 - 438 Aligned: 17 Modelled: 20 Confidence: 8.5% Identity: 18% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Phage repressors Phyre2 PDB 1xpp chain A Region: 19 - 30 Aligned: 12 Modelled: 12 Confidence: 8.3% Identity: 25% Fold: DCoH-like Superfamily: RBP11-like subunits of RNA polymerase Family: RBP11/RpoL Phyre2 PDB 2l9m chain A Region: 4 - 25 Aligned: 22 Modelled: 22 Confidence: 7.3% Identity: 18% PDB header:apoptosis inhibitor Chain: A: PDB Molecule:baculoviral iap repeat-containing protein 2; PDBTitle: structure of ciap1 card Phyre2 PDB 2qup chain A Region: 11 - 26 Aligned: 16 Modelled: 16 Confidence: 7.1% Identity: 13% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:bh1478 protein; PDBTitle: crystal structure of uncharacterized protein bh1478 from bacillus2 halodurans Phyre2 PDB 1iq8 chain A domain 4 Region: 430 - 446 Aligned: 17 Modelled: 17 Confidence: 7.1% Identity: 6% Fold: Cystatin-like Superfamily: Pre-PUA domain Family: Archaeosine tRNA-guanine transglycosylase, C2 domain Phyre2 PDB 3neu chain A Region: 414 - 435 Aligned: 22 Modelled: 22 Confidence: 6.9% Identity: 14% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin1836 protein; PDBTitle: the crystal structure of a functionally-unknown protein lin1836 from2 listeria innocua clip11262 Phyre2 PDB 1twf chain K Region: 19 - 29 Aligned: 11 Modelled: 11 Confidence: 6.7% Identity: 45% Fold: DCoH-like Superfamily: RBP11-like subunits of RNA polymerase Family: RBP11/RpoL Phyre2 PDB 2b7e chain A domain 1 Region: 1 - 28 Aligned: 28 Modelled: 28 Confidence: 6.3% Identity: 11% Fold: Another 3-helical bundle Superfamily: FF domain Family: FF domain Phyre2 PDB 3eet chain A Region: 419 - 435 Aligned: 17 Modelled: 17 Confidence: 6.3% Identity: 12% PDB header:transcription regulator Chain: A: PDB Molecule:putative gntr-family transcriptional regulator; PDBTitle: crystal structure of putative gntr-family transcriptional2 regulator Phyre2 PDB 1u0u chain A domain 2 Region: 414 - 452 Aligned: 39 Modelled: 39 Confidence: 5.9% Identity: 10% Fold: Thiolase-like Superfamily: Thiolase-like Family: Chalcone synthase-like Phyre2 PDB 3myr chain B Region: 12 - 29 Aligned: 18 Modelled: 18 Confidence: 5.9% Identity: 28% PDB header:oxidoreductase Chain: B: PDB Molecule:nickel-dependent hydrogenase large subunit; PDBTitle: crystal structure of [nife] hydrogenase from allochromatium vinosum in2 its ni-a state Phyre2 1 c3qnqD_ 2 c3b9yA_ 3 d1iuqa_ 4 d2b0la1 5 c2voyE_ 6 d2nwwa1 7 c3hd6A_ 8 c2pmzL_ 9 c3h0gK_ 10 d1rzsa_ 11 d1xppa_ 12 c2l9mA_ 13 c2qupA_ 14 d1iq8a4 15 c3neuA_ 16 d1twfk_ 17 d2b7ea1 18 c3eetA_ 19 d1u0ua2 20 c3myrB_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35

Detailed template information

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

1 c3qnqD_ 33.8 12 PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system 2 c3b9yA_ 17.1 10 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 3 d1iuqa_ 13.6 12 Fold:Glycerol-3-phosphate (1)-acyltransferase Superfamily:Glycerol-3-phosphate (1)-acyltransferase Family:Glycerol-3-phosphate (1)-acyltransferase 4 d2b0la1 10.7 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CodY HTH domain 5 c2voyE_ 10.6 29 PDB header:hydrolase Chain: E: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus 6 d2nwwa1 10.4 16 Fold:Proton glutamate symport protein Superfamily:Proton glutamate symport protein Family:Proton glutamate symport protein 7 c3hd6A_ 10.3 18 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 8 c2pmzL_ 8.9 36 PDB header:translation, transferase Chain: L: PDB Molecule:dna-directed rna polymerase subunit l; PDBTitle: archaeal rna polymerase from sulfolobus solfataricus 9 c3h0gK_ 8.9 64 PDB header:transcription Chain: K: PDB Molecule:dna-directed rna polymerase ii subunit rpb11; PDBTitle: rna polymerase ii from schizosaccharomyces pombe 10 d1rzsa_ 8.5 18 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 11 d1xppa_ 8.3 25 Fold:DCoH-like Superfamily:RBP11-like subunits of RNA polymerase Family:RBP11/RpoL 12 c2l9mA_ 7.3 18 PDB header:apoptosis inhibitor Chain: A: PDB Molecule:baculoviral iap repeat-containing protein 2; PDBTitle: structure of ciap1 card 13 c2qupA_ 7.1 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:bh1478 protein; PDBTitle: crystal structure of uncharacterized protein bh1478 from bacillus2 halodurans 14 d1iq8a4 7.1 6 Fold:Cystatin-like Superfamily:Pre-PUA domain Family:Archaeosine tRNA-guanine transglycosylase, C2 domain 15 c3neuA_ 6.9 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin1836 protein; PDBTitle: the crystal structure of a functionally-unknown protein lin1836 from2 listeria innocua clip11262 16 d1twfk_ 6.7 45 Fold:DCoH-like Superfamily:RBP11-like subunits of RNA polymerase Family:RBP11/RpoL 17 d2b7ea1 6.3 11 Fold:Another 3-helical bundle Superfamily:FF domain Family:FF domain 18 c3eetA_ 6.3 12 PDB header:transcription regulator Chain: A: PDB Molecule:putative gntr-family transcriptional regulator; PDBTitle: crystal structure of putative gntr-family transcriptional2 regulator 19 d1u0ua2 5.9 10 Fold:Thiolase-like Superfamily:Thiolase-like Family:Chalcone synthase-like 20 c3myrB_ 5.9 28 PDB header:oxidoreductase Chain: B: PDB Molecule:nickel-dependent hydrogenase large subunit; PDBTitle: crystal structure of [nife] hydrogenase from allochromatium vinosum in2 its ni-a state 21 d1n1ea1 not modelled 5.8 15 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like Family:Glycerol-3-phosphate dehydrogenase 22 c2p61A_ not modelled 5.7 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein tm_1646; PDBTitle: crystal structure of protein tm1646 from thermotoga2 maritima, pfam duf327 23 c2du9A_ not modelled 5.7 17 PDB header:transcription Chain: A: PDB Molecule:predicted transcriptional regulators; PDBTitle: crystal structure of the transcriptional factor from c.glutamicum 24 c1hgvA_ not modelled 5.7 8 PDB header:virus Chain: A: PDB Molecule:ph75 inovirus major coat protein; PDBTitle: filamentous bacteriophage ph75 25 d2p61a1 not modelled 5.7 19 Fold:Four-helical up-and-down bundle Superfamily:TM1646-like Family:TM1646-like 26 d1vkya_ not modelled 5.6 24 Fold:QueA-like Superfamily:QueA-like Family:QueA-like 27 c3eh4A_ not modelled 5.6 9 PDB header:oxidoreductase Chain: A: PDB Molecule:cytochrome c oxidase subunit 1; PDBTitle: structure of the reduced form of cytochrome ba3 oxidase from thermus2 thermophilus 28 c3d0wD_ not modelled 5.5 13 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:yflh protein; PDBTitle: crystal structure of yflh protein from bacillus subtilis.2 northeast structural genomics consortium target sr326 29 d1wdia_ not modelled 5.3 29 Fold:QueA-like Superfamily:QueA-like Family:QueA-like 30 c1yy3A_ not modelled 5.3 19 PDB header:isomerase Chain: A: PDB Molecule:s-adenosylmethionine:trna ribosyltransferase- PDBTitle: structure of s-adenosylmethionine:trna ribosyltransferase-2 isomerase (quea) 31 c2igrA_ not modelled 5.3 21 PDB header:de novo protein, lipid binding protein Chain: A: PDB Molecule:anticancer peptide cb1a; PDBTitle: solution structure of cb1a, a novel anticancer peptide derived from2 natural antimicrobial peptide cecropin b 32 d1oqya2 not modelled 5.2 20 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 33 c2jlnA_ not modelled 5.1 0 PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter 34 d1xmea1 not modelled 5.1 9 Fold:Cytochrome c oxidase subunit I-like Superfamily:Cytochrome c oxidase subunit I-like Family:Cytochrome c oxidase subunit I-like 35 d1dv0a_ not modelled 5.0 21 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA 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