Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	M	L	S	K	K	N	S	E	T	L	E	N	F	S	E	K	L	E	V	E	G	R	S	L	W	Q	D	A	R	R	R	F	M	H	N	R	A	A	V	A	S	L	I	V	L	V	L	I	A	L	F	V	I	L	A	P	M	L	S
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Q	F	A	Y	D	D	T	D	W	A	M	M	S	S	A	P	D	M	E	S	G	H	Y	F	G	T	D	S	S	G	R	D	L	L	V	R	V	A	I	G	G	R	I	S	L	M	V	G	V	A	A	A	L	V	A	V	V	V	G	T
Secondary structure
SS confidence
Disorder															?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	Y	G	S	L	S	G	Y	L	G	G	K	V	D	S	V	M	M	R	L	L	E	I	L	N	S	F	P	F	M	F	F	V	I	L	L	V	T	F	F	G	Q	N	I	L	L	I	F	V	A	I	G	M	V	S	W	L	D	M	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		R	I	V	R	G	Q	T	L	S	L	K	R	K	E	F	I	E	A	A	Q	V	G	G	V	S	T	S	G	I	V	I	R	H	I	V	P	N	V	L	G	V	V	V	V	Y	A	S	L	L	V	P	S	M	I	L	F	E	S	F	L
Secondary structure
SS confidence
Disorder													?														?																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		S	F	L	G	L	G	T	Q	E	P	L	S	S	W	G	A	L	L	S	D	G	A	N	S	M	E	V	S	P	W	L	L	L	F	P	A	G	F	L	V	V	T	L	F	C	F	N	F	I	G	D	G	L	R	D	A	L	D	P	K
Secondary structure
SS confidence
Disorder																																																												?	?
Disorder confidence
		.	.
Sequence		D	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 3dhw chain A domain 1 Region: 97 - 291 Aligned: 187 Modelled: 195 Confidence: 99.9% Identity: 18% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2onk chain C Region: 32 - 293 Aligned: 235 Modelled: 242 Confidence: 99.9% Identity: 16% 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: 32 - 293 Aligned: 235 Modelled: 242 Confidence: 99.9% Identity: 16% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain C domain 1 Region: 95 - 289 Aligned: 188 Modelled: 195 Confidence: 99.8% Identity: 19% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain D Region: 95 - 289 Aligned: 188 Modelled: 194 Confidence: 99.8% Identity: 19% PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans Phyre2 PDB 3fh6 chain F Region: 42 - 295 Aligned: 253 Modelled: 254 Confidence: 99.8% Identity: 11% 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 F domain 2 Region: 82 - 289 Aligned: 207 Modelled: 208 Confidence: 99.8% Identity: 12% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2r6g chain G domain 1 Region: 30 - 291 Aligned: 259 Modelled: 262 Confidence: 99.8% Identity: 12% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2r6g chain F Region: 82 - 288 Aligned: 206 Modelled: 207 Confidence: 99.8% 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 3hd7 chain A Region: 6 - 55 Aligned: 50 Modelled: 50 Confidence: 44.2% Identity: 12% PDB header:exocytosis Chain: A: PDB Molecule:vesicle-associated membrane protein 2; PDBTitle: helical extension of the neuronal snare complex into the membrane,2 spacegroup c 1 2 1 Phyre2 PDB 2jwa chain A Region: 102 - 135 Aligned: 34 Modelled: 34 Confidence: 18.7% Identity: 26% PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure Phyre2 PDB 2kc8 chain B Region: 1 - 22 Aligned: 22 Modelled: 22 Confidence: 11.9% Identity: 27% PDB header:toxin/toxin repressor Chain: B: PDB Molecule:antitoxin relb; PDBTitle: structure of e. coli toxin rele (r81a/r83a) mutant in2 complex with antitoxin relbc (k47-l79) peptide Phyre2 PDB 1pjq chain A domain 3 Region: 167 - 203 Aligned: 37 Modelled: 37 Confidence: 10.2% Identity: 24% Fold: Siroheme synthase middle domains-like Superfamily: Siroheme synthase middle domains-like Family: Siroheme synthase middle domains-like Phyre2 PDB 1wz4 chain A Region: 297 - 302 Aligned: 6 Modelled: 6 Confidence: 9.4% Identity: 67% PDB header:gene regulation Chain: A: PDB Molecule:major surface antigen; PDBTitle: solution conformation of adr subtype hbv pre-s2 epitope Phyre2 PDB 3k8p chain C Region: 2 - 14 Aligned: 13 Modelled: 13 Confidence: 8.1% Identity: 46% PDB header:transport protein/transport protein Chain: C: PDB Molecule:dsl1; PDBTitle: structural basis for vesicle tethering by the dsl1 complex Phyre2 PDB 1umq chain A Region: 181 - 212 Aligned: 32 Modelled: 32 Confidence: 7.4% Identity: 6% 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: 181 - 212 Aligned: 32 Modelled: 32 Confidence: 7.4% Identity: 6% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1zrt chain D Region: 5 - 59 Aligned: 43 Modelled: 55 Confidence: 7.4% Identity: 14% PDB header:oxidoreductase/metal transport Chain: D: PDB Molecule:cytochrome c1; PDBTitle: rhodobacter capsulatus cytochrome bc1 complex with2 stigmatellin bound Phyre2 PDB 1ntc chain A Region: 181 - 212 Aligned: 32 Modelled: 32 Confidence: 6.5% Identity: 19% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 2pco chain A Region: 24 - 35 Aligned: 12 Modelled: 12 Confidence: 6.0% Identity: 33% PDB header:toxin Chain: A: PDB Molecule:latarcin-1; PDBTitle: spatial structure and membrane permeabilization for2 latarcin-1, a spider antimicrobial peptide Phyre2 1 d3dhwa1 2 c2onkC_ 3 d2onkc1 4 d3d31c1 5 c3d31D_ 6 c3fh6F_ 7 d2r6gf2 8 d2r6gg1 9 c2r6gF_ 10 c3hd7A_ 11 c2jwaA_ 12 c2kc8B_ 13 d1pjqa3 14 c1wz4A_ 15 c3k8pC_ 16 c1umqA_ 17 d1umqa_ 18 c1zrtD_ 19 d1ntca_ 20 c2pcoA_ 21 22 23 24 25

Detailed template information

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

1 d3dhwa1 99.9 18 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 2 c2onkC_ 99.9 16 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 d2onkc1 99.9 16 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 4 d3d31c1 99.8 19 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 5 c3d31D_ 99.8 19 PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans 6 c3fh6F_ 99.8 11 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 7 d2r6gf2 99.8 12 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 8 d2r6gg1 99.8 12 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 9 c2r6gF_ 99.8 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 10 c3hd7A_ 44.2 12 PDB header:exocytosis Chain: A: PDB Molecule:vesicle-associated membrane protein 2; PDBTitle: helical extension of the neuronal snare complex into the membrane,2 spacegroup c 1 2 1 11 c2jwaA_ 18.7 26 PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure 12 c2kc8B_ 11.9 27 PDB header:toxin/toxin repressor Chain: B: PDB Molecule:antitoxin relb; PDBTitle: structure of e. coli toxin rele (r81a/r83a) mutant in2 complex with antitoxin relbc (k47-l79) peptide 13 d1pjqa3 10.2 24 Fold:Siroheme synthase middle domains-like Superfamily:Siroheme synthase middle domains-like Family:Siroheme synthase middle domains-like 14 c1wz4A_ 9.4 67 PDB header:gene regulation Chain: A: PDB Molecule:major surface antigen; PDBTitle: solution conformation of adr subtype hbv pre-s2 epitope 15 c3k8pC_ 8.1 46 PDB header:transport protein/transport protein Chain: C: PDB Molecule:dsl1; PDBTitle: structural basis for vesicle tethering by the dsl1 complex 16 c1umqA_ 7.4 6 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 17 d1umqa_ 7.4 6 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 18 c1zrtD_ 7.4 14 PDB header:oxidoreductase/metal transport Chain: D: PDB Molecule:cytochrome c1; PDBTitle: rhodobacter capsulatus cytochrome bc1 complex with2 stigmatellin bound 19 d1ntca_ 6.5 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 20 c2pcoA_ 6.0 33 PDB header:toxin Chain: A: PDB Molecule:latarcin-1; PDBTitle: spatial structure and membrane permeabilization for2 latarcin-1, a spider antimicrobial peptide 21 d1g2ha_ not modelled 6.0 38 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 22 d1fipa_ not modelled 5.4 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 23 d2axtk1 not modelled 5.1 16 Fold:Single transmembrane helix Superfamily:Photosystem II reaction center protein K, PsbK Family:PsbK-like 24 d1q7ha2 not modelled 5.1 17 Fold:Cystatin-like Superfamily:Pre-PUA domain Family:Hypothetical protein Ta1423, N-terminal domain 25 c3a0hk_ not modelled 5.1 24 PDB header:electron transport Chain: K: PDB Molecule:photosystem ii reaction center protein k; PDBTitle: crystal structure of i-substituted photosystem ii complex

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