Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	S	H	N	I	T	N	E	S	L	A	L	A	L	M	L	V	V	V	A	I	L	I	S	H	K	E	K	L	A	L	E	K	D	I	L	W	S	V	G	R	A	I	I	Q	L	I	I	V	G	Y	V	L	K	Y	I	F	S	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																					?		?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		D	D	A	S	L	T	L	L	M	V	L	F	I	C	F	N	A	A	W	N	A	Q	K	R	S	K	Y	I	A	K	A	F	I	S	S	F	I	A	I	T	V	G	A	G	I	T	L	A	V	L	I	L	S	G	S	I	E	F	I	P
Secondary structure
SS confidence
Disorder																								?	?	?	?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		M	Q	V	I	P	I	A	G	M	I	A	G	N	A	M	V	A	V	G	L	C	Y	N	N	L	G	Q	R	V	I	S	E	Q	Q	Q	I	Q	E	K	L	S	L	G	A	T	P	K	Q	A	S	A	I	L	I	R	D	S	I	R	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		A	L	I	P	T	V	D	S	A	K	T	V	G	L	V	S	L	P	G	M	M	S	G	L	I	F	A	G	I	D	P	V	K	A	I	K	Y	Q	I	M	V	T	F	M	L	L	S	T	A	S	L	S	T	I	I	A	C	Y	L	T
Secondary structure
SS confidence
Disorder									?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.
Sequence		Y	R	K	F	Y	N	S	R	H	Q	L	V	V	T	Q	L	K	K	K
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 3k07 chain A Region: 61 - 259 Aligned: 189 Modelled: 199 Confidence: 95.6% Identity: 16% PDB header:transport protein Chain: A: PDB Molecule:cation efflux system protein cusa; PDBTitle: crystal structure of cusa Phyre2 PDB 3d31 chain C domain 1 Region: 11 - 237 Aligned: 221 Modelled: 224 Confidence: 93.7% Identity: 12% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain D Region: 11 - 237 Aligned: 221 Modelled: 224 Confidence: 93.7% Identity: 12% PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans Phyre2 PDB 3dhw chain A domain 1 Region: 36 - 234 Aligned: 185 Modelled: 185 Confidence: 92.9% Identity: 12% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2r6g chain F Region: 63 - 186 Aligned: 124 Modelled: 124 Confidence: 88.0% 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: 63 - 186 Aligned: 124 Modelled: 124 Confidence: 83.2% Identity: 12% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3fh6 chain F Region: 63 - 186 Aligned: 124 Modelled: 124 Confidence: 80.5% Identity: 12% 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 2onk chain C Region: 11 - 240 Aligned: 215 Modelled: 218 Confidence: 69.7% 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 2onk chain C domain 1 Region: 11 - 240 Aligned: 215 Modelled: 218 Confidence: 69.7% Identity: 12% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3aqp chain B Region: 65 - 242 Aligned: 153 Modelled: 174 Confidence: 65.8% Identity: 15% PDB header:membrane protein Chain: B: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: crystal structure of secdf, a translocon-associated membrane protein,2 from thermus thrmophilus Phyre2 PDB 2r6g chain G domain 1 Region: 55 - 186 Aligned: 132 Modelled: 132 Confidence: 59.3% Identity: 11% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 1iwg chain A domain 8 Region: 59 - 201 Aligned: 123 Modelled: 129 Confidence: 39.5% Identity: 19% Fold: Multidrug efflux transporter AcrB transmembrane domain Superfamily: Multidrug efflux transporter AcrB transmembrane domain Family: Multidrug efflux transporter AcrB transmembrane domain Phyre2 PDB 2job chain A Region: 167 - 183 Aligned: 17 Modelled: 17 Confidence: 35.0% Identity: 18% PDB header:lipid binding protein Chain: A: PDB Molecule:antilipopolysaccharide factor; PDBTitle: solution structure of an antilipopolysaccharide factor from2 shrimp and its possible lipid a binding site Phyre2 PDB 2gy9 chain P domain 1 Region: 152 - 176 Aligned: 25 Modelled: 25 Confidence: 34.5% Identity: 28% Fold: Ribosomal protein S16 Superfamily: Ribosomal protein S16 Family: Ribosomal protein S16 Phyre2 PDB 2uub chain P domain 1 Region: 152 - 177 Aligned: 26 Modelled: 26 Confidence: 32.7% Identity: 27% Fold: Ribosomal protein S16 Superfamily: Ribosomal protein S16 Family: Ribosomal protein S16 Phyre2 PDB 1cuk chain A domain 1 Region: 150 - 175 Aligned: 26 Modelled: 26 Confidence: 31.5% Identity: 27% Fold: RuvA C-terminal domain-like Superfamily: DNA helicase RuvA subunit, C-terminal domain Family: DNA helicase RuvA subunit, C-terminal domain Phyre2 PDB 3bn0 chain A domain 1 Region: 152 - 177 Aligned: 26 Modelled: 26 Confidence: 27.1% Identity: 8% Fold: Ribosomal protein S16 Superfamily: Ribosomal protein S16 Family: Ribosomal protein S16 Phyre2 PDB 2akc chain C Region: 126 - 162 Aligned: 37 Modelled: 37 Confidence: 24.2% Identity: 16% PDB header:hydrolase Chain: C: PDB Molecule:class a nonspecific acid phosphatase phon; PDBTitle: crystal structure of tungstate complex of the phon protein2 from s. typhimurium Phyre2 PDB 3i5d chain C Region: 44 - 62 Aligned: 19 Modelled: 19 Confidence: 22.1% Identity: 21% PDB header:transport protein Chain: C: PDB Molecule:p2x purinoceptor; PDBTitle: crystal structure of the atp-gated p2x4 ion channel in the closed, apo2 state at 3.5 angstroms (r3) Phyre2 PDB 2amw chain A Region: 181 - 196 Aligned: 16 Modelled: 16 Confidence: 21.5% Identity: 31% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ne2163; PDBTitle: solution nmr structure of protein ne2163 from nitrosomonas europaea.2 northeast structural genomics consortium target net1. Phyre2 1 c3k07A_ 2 d3d31c1 3 c3d31D_ 4 d3dhwa1 5 c2r6gF_ 6 d2r6gf2 7 c3fh6F_ 8 c2onkC_ 9 d2onkc1 10 c3aqpB_ 11 d2r6gg1 12 d1iwga8 13 c2jobA_ 14 d2gy9p1 15 d2uubp1 16 d1cuka1 17 d3bn0a1 18 c2akcC_ 19 c3i5dC_ 20 c2amwA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37

Detailed template information

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

1 c3k07A_ 95.6 16 PDB header:transport protein Chain: A: PDB Molecule:cation efflux system protein cusa; PDBTitle: crystal structure of cusa 2 d3d31c1 93.7 12 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 3 c3d31D_ 93.7 12 PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans 4 d3dhwa1 92.9 12 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 5 c2r6gF_ 88.0 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 6 d2r6gf2 83.2 12 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 7 c3fh6F_ 80.5 12 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 8 c2onkC_ 69.7 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 9 d2onkc1 69.7 12 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 10 c3aqpB_ 65.8 15 PDB header:membrane protein Chain: B: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: crystal structure of secdf, a translocon-associated membrane protein,2 from thermus thrmophilus 11 d2r6gg1 59.3 11 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 12 d1iwga8 39.5 19 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 13 c2jobA_ 35.0 18 PDB header:lipid binding protein Chain: A: PDB Molecule:antilipopolysaccharide factor; PDBTitle: solution structure of an antilipopolysaccharide factor from2 shrimp and its possible lipid a binding site 14 d2gy9p1 34.5 28 Fold:Ribosomal protein S16 Superfamily:Ribosomal protein S16 Family:Ribosomal protein S16 15 d2uubp1 32.7 27 Fold:Ribosomal protein S16 Superfamily:Ribosomal protein S16 Family:Ribosomal protein S16 16 d1cuka1 31.5 27 Fold:RuvA C-terminal domain-like Superfamily:DNA helicase RuvA subunit, C-terminal domain Family:DNA helicase RuvA subunit, C-terminal domain 17 d3bn0a1 27.1 8 Fold:Ribosomal protein S16 Superfamily:Ribosomal protein S16 Family:Ribosomal protein S16 18 c2akcC_ 24.2 16 PDB header:hydrolase Chain: C: PDB Molecule:class a nonspecific acid phosphatase phon; PDBTitle: crystal structure of tungstate complex of the phon protein2 from s. typhimurium 19 c3i5dC_ 22.1 21 PDB header:transport protein Chain: C: PDB Molecule:p2x purinoceptor; PDBTitle: crystal structure of the atp-gated p2x4 ion channel in the closed, apo2 state at 3.5 angstroms (r3) 20 c2amwA_ 21.5 31 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ne2163; PDBTitle: solution nmr structure of protein ne2163 from nitrosomonas europaea.2 northeast structural genomics consortium target net1. 21 c3idwA_ not modelled 19.7 21 PDB header:endocytosis Chain: A: PDB Molecule:actin cytoskeleton-regulatory complex protein sla1; PDBTitle: crystal structure of sla1 homology domain 2 22 c2lkiA_ not modelled 19.5 31 PDB header:lipid transport Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: solution nmr structure of holo acyl carrier protein ne2163 from2 nitrosomonas europaea. northeast structural genomics consortium3 target net1. 23 c3h4cA_ not modelled 19.5 13 PDB header:transcription Chain: A: PDB Molecule:transcription factor tfiib-like; PDBTitle: structure of the c-terminal domain of transcription factor iib from2 trypanosoma brucei 24 d1njra_ not modelled 15.4 16 Fold:Macro domain-like Superfamily:Macro domain-like Family:Macro domain 25 d1pn2a1 not modelled 10.7 39 Fold:Thioesterase/thiol ester dehydrase-isomerase Superfamily:Thioesterase/thiol ester dehydrase-isomerase Family:MaoC-like 26 d1iwga7 not modelled 8.6 23 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 27 c3mlgB_ not modelled 7.5 23 PDB header:unknown function Chain: B: PDB Molecule:putative uncharacterized protein, linker, putative PDBTitle: 2ouf-2x, a designed knotted protein 28 c3beyC_ not modelled 7.5 11 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:conserved protein o27018; PDBTitle: crystal structure of the protein o27018 from methanobacterium2 thermoautotrophicum. northeast structural genomics consortium target3 tt217 29 d1u14a_ not modelled 7.5 17 Fold:Anticodon-binding domain-like Superfamily:ITPase-like Family:YjjX-like 30 d1oqya2 not modelled 6.8 17 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 31 d1ijwc_ not modelled 6.6 33 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Recombinase DNA-binding domain 32 c2k29A_ not modelled 6.1 14 PDB header:transcription Chain: A: PDB Molecule:antitoxin relb; PDBTitle: structure of the dbd domain of e. coli antitoxin relb 33 c3rxyA_ not modelled 5.8 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:nif3 protein; PDBTitle: crystal structure of nif3 superfamily protein from sphaerobacter2 thermophilus 34 d1hcra_ not modelled 5.8 33 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Recombinase DNA-binding domain 35 d2c4va1 not modelled 5.7 7 Fold:Flavodoxin-like Superfamily:Type II 3-dehydroquinate dehydratase Family:Type II 3-dehydroquinate dehydratase 36 d1oqya1 not modelled 5.3 19 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 37 c1pn2D_ not modelled 5.3 39 PDB header:lyase Chain: D: PDB Molecule:peroxisomal hydratase-dehydrogenase-epimerase; PDBTitle: crystal structure analysis of the selenomethionine labelled2 2-enoyl-coa hydratase 2 domain of candida tropicalis3 multifunctional enzyme type 2

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