Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	R	Y	D	L	V	D	R	L	N	T	T	F	R	Q	M	E	Q	E	L	A	I	F	A	A	H	L	E	Q	H	K	L	L	V	A	R	V	F	S	L	P	E	V	K	K	E	D	E	H	N	P	L	N	R	I	E	V	K	Q
Secondary structure
SS confidence
Disorder		?	?	?	?	?																								?	?	?	?	?	?			?		?	?	?	?	?	?	?	?	?	?	?	?	?								?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		H	L	G	N	D	A	Q	S	L	A	L	R	H	F	R	H	L	F	I	Q	Q	Q	S	E	N	R	S	S	K	A	A	V	R	L	P	G	V	L	C	Y	Q	V	D	N	L	S	Q	A	A	L	V	S	H	I	Q	H	I	N	K	L
Secondary structure
SS confidence
Disorder		?																				?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		K	T	T	F	E	H	I	V	T	V	E	S	E	L	P	T	A	A	R	F	E	W	V	H	R	H	L	P	G	L	I	T	L	N	A	Y	R	T	L	T	V	L	H	D	P	A	T	L	R	F	G	W	A	N	K	H	I	I	K	N
Secondary structure
SS confidence
Disorder												?	?	?	?	?																																						?	?	?	?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		L	H	R	D	E	V	L	A	Q	L	E	K	S	L	K	S	P	R	S	V	A	P	W	T	R	E	E	W	Q	R	K	L	E	R	E	Y	Q	D	I	A	A	L	P	Q	N	A	K	L	K	I	K	R	P	V	K	V	Q	P	I	A
Secondary structure
SS confidence
Disorder																?	?	?	?	?	?	?	?	?	?	?																?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		R	V	W	Y	K	G	D	Q	K	Q	V	Q	H	A	C	P	T	P	L	I	A	L	I	N	R	D	N	G	A	G	V	P	D	V	G	E	L	L	N	Y	D	A	D	N	V	Q	H	R	Y	K	P	Q	A	Q	P	L	R	L	I	I
Secondary structure
SS confidence
Disorder								?	?	?	?															?	?	?	?	?	?	?	?	?	?						?	?		?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.
Sequence		P	R	L	H	L	Y	V	A	D
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 2i06 chain A domain 1 Region: 5 - 309 Aligned: 305 Modelled: 305 Confidence: 100.0% Identity: 100% Fold: Replication terminator protein (Tus) Superfamily: Replication terminator protein (Tus) Family: Replication terminator protein (Tus) Phyre2 PDB 2a1j chain A domain 1 Region: 92 - 151 Aligned: 55 Modelled: 60 Confidence: 51.5% Identity: 20% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: Hef domain-like Phyre2 PDB 2gec chain A domain 1 Region: 232 - 306 Aligned: 71 Modelled: 75 Confidence: 33.7% Identity: 18% Fold: Coronavirus RNA-binding domain Superfamily: Coronavirus RNA-binding domain Family: Coronavirus RNA-binding domain Phyre2 PDB 2bxx chain A domain 1 Region: 284 - 306 Aligned: 23 Modelled: 23 Confidence: 21.9% Identity: 22% Fold: Coronavirus RNA-binding domain Superfamily: Coronavirus RNA-binding domain Family: Coronavirus RNA-binding domain Phyre2 PDB 2d3j chain A Region: 154 - 176 Aligned: 23 Modelled: 23 Confidence: 18.7% Identity: 13% PDB header:signaling protein inhibitor Chain: A: PDB Molecule:wnt inhibitory factor-1; PDBTitle: nmr structure of the wif domain from human wif-1 Phyre2 PDB 3kx6 chain C Region: 9 - 120 Aligned: 92 Modelled: 112 Confidence: 14.8% Identity: 22% PDB header:lyase Chain: C: PDB Molecule:fructose-bisphosphate aldolase; PDBTitle: crystal structure of fructose-1,6-bisphosphate aldolase from babesia2 bovis at 2.1a resolution Phyre2 PDB 2aq0 chain A domain 1 Region: 92 - 158 Aligned: 62 Modelled: 67 Confidence: 14.8% Identity: 18% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: Hef domain-like Phyre2 PDB 1vdd chain A Region: 64 - 124 Aligned: 51 Modelled: 61 Confidence: 14.4% Identity: 16% Fold: Recombination protein RecR Superfamily: Recombination protein RecR Family: Recombination protein RecR Phyre2 PDB 1vdd chain C Region: 64 - 124 Aligned: 51 Modelled: 61 Confidence: 13.1% Identity: 16% PDB header:recombination Chain: C: PDB Molecule:recombination protein recr; PDBTitle: crystal structure of recombinational repair protein recr Phyre2 PDB 2km6 chain A Region: 1 - 81 Aligned: 80 Modelled: 81 Confidence: 12.5% Identity: 24% PDB header:signaling protein, protein binding Chain: A: PDB Molecule:nacht, lrr and pyd domains-containing protein 7; PDBTitle: nmr structure of the nlrp7 pyrin domain Phyre2 PDB 1ci6 chain B Region: 8 - 31 Aligned: 24 Modelled: 24 Confidence: 11.4% Identity: 25% PDB header:transcription Chain: B: PDB Molecule:transcription factor c/ebp beta; PDBTitle: transcription factor atf4-c/ebp beta bzip heterodimer Phyre2 PDB 3qf2 chain B Region: 18 - 81 Aligned: 63 Modelled: 64 Confidence: 11.3% Identity: 19% PDB header:apoptosis Chain: B: PDB Molecule:nacht, lrr and pyd domains-containing protein 3; PDBTitle: crystal structure of nalp3 pyd Phyre2 PDB 2pnv chain A Region: 4 - 31 Aligned: 28 Modelled: 28 Confidence: 10.5% Identity: 25% PDB header:membrane protein Chain: A: PDB Molecule:small conductance calcium-activated potassium PDBTitle: crystal structure of the leucine zipper domain of small-2 conductance ca2+-activated k+ (skca) channel from rattus3 norvegicus Phyre2 PDB 1s1c chain Y Region: 115 - 138 Aligned: 24 Modelled: 24 Confidence: 9.4% Identity: 38% PDB header:signaling protein Chain: Y: PDB Molecule:rho-associated, coiled-coil containing protein PDBTitle: crystal structure of the complex between the human rhoa and2 rho-binding domain of human rocki Phyre2 PDB 1pn5 chain A domain 1 Region: 18 - 81 Aligned: 63 Modelled: 64 Confidence: 8.7% Identity: 17% Fold: DEATH domain Superfamily: DEATH domain Family: Pyrin domain, PYD Phyre2 PDB 1pn5 chain A Region: 18 - 81 Aligned: 63 Modelled: 64 Confidence: 8.7% Identity: 17% PDB header:apoptosis Chain: A: PDB Molecule:nacht-, lrr- and pyd-containing protein 2; PDBTitle: nmr structure of the nalp1 pyrin domain (pyd) Phyre2 PDB 1a9x chain A domain 3 Region: 136 - 194 Aligned: 59 Modelled: 59 Confidence: 8.2% Identity: 24% Fold: PreATP-grasp domain Superfamily: PreATP-grasp domain Family: BC N-terminal domain-like Phyre2 PDB 2gef chain A Region: 225 - 267 Aligned: 42 Modelled: 43 Confidence: 7.3% Identity: 17% PDB header:hydrolase Chain: A: PDB Molecule:protease vp4; PDBTitle: crystal structure of a novel viral protease with a2 serine/lysine catalytic dyad mechanism Phyre2 PDB 2do9 chain A Region: 18 - 81 Aligned: 58 Modelled: 64 Confidence: 7.2% Identity: 16% PDB header:signaling protein Chain: A: PDB Molecule:nacht-, lrr- and pyd-containing protein 10; PDBTitle: solution structure of the pyrin/paad-dapin domain in mouse2 nalp10 (nacht, leucine rich repeat and pyd containing 10) Phyre2 1 d2i06a1 2 d2a1ja1 3 d2geca1 4 d2bxxa1 5 c2d3jA_ 6 c3kx6C_ 7 d2aq0a1 8 d1vdda_ 9 c1vddC_ 10 c2km6A_ 11 c1ci6B_ 12 c3qf2B_ 13 c2pnvA_ 14 c1s1cY_ 15 d1pn5a1 16 c1pn5A_ 17 d1a9xa3 18 c2gefA_ 19 c2do9A_

Detailed template information

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

1 d2i06a1 100.0 100 Fold:Replication terminator protein (Tus) Superfamily:Replication terminator protein (Tus) Family:Replication terminator protein (Tus) 2 d2a1ja1 51.5 20 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 3 d2geca1 33.7 18 Fold:Coronavirus RNA-binding domain Superfamily:Coronavirus RNA-binding domain Family:Coronavirus RNA-binding domain 4 d2bxxa1 21.9 22 Fold:Coronavirus RNA-binding domain Superfamily:Coronavirus RNA-binding domain Family:Coronavirus RNA-binding domain 5 c2d3jA_ 18.7 13 PDB header:signaling protein inhibitor Chain: A: PDB Molecule:wnt inhibitory factor-1; PDBTitle: nmr structure of the wif domain from human wif-1 6 c3kx6C_ 14.8 22 PDB header:lyase Chain: C: PDB Molecule:fructose-bisphosphate aldolase; PDBTitle: crystal structure of fructose-1,6-bisphosphate aldolase from babesia2 bovis at 2.1a resolution 7 d2aq0a1 14.8 18 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 8 d1vdda_ 14.4 16 Fold:Recombination protein RecR Superfamily:Recombination protein RecR Family:Recombination protein RecR 9 c1vddC_ 13.1 16 PDB header:recombination Chain: C: PDB Molecule:recombination protein recr; PDBTitle: crystal structure of recombinational repair protein recr 10 c2km6A_ 12.5 24 PDB header:signaling protein, protein binding Chain: A: PDB Molecule:nacht, lrr and pyd domains-containing protein 7; PDBTitle: nmr structure of the nlrp7 pyrin domain 11 c1ci6B_ 11.4 25 PDB header:transcription Chain: B: PDB Molecule:transcription factor c/ebp beta; PDBTitle: transcription factor atf4-c/ebp beta bzip heterodimer 12 c3qf2B_ 11.3 19 PDB header:apoptosis Chain: B: PDB Molecule:nacht, lrr and pyd domains-containing protein 3; PDBTitle: crystal structure of nalp3 pyd 13 c2pnvA_ 10.5 25 PDB header:membrane protein Chain: A: PDB Molecule:small conductance calcium-activated potassium PDBTitle: crystal structure of the leucine zipper domain of small-2 conductance ca2+-activated k+ (skca) channel from rattus3 norvegicus 14 c1s1cY_ 9.4 38 PDB header:signaling protein Chain: Y: PDB Molecule:rho-associated, coiled-coil containing protein PDBTitle: crystal structure of the complex between the human rhoa and2 rho-binding domain of human rocki 15 d1pn5a1 8.7 17 Fold:DEATH domain Superfamily:DEATH domain Family:Pyrin domain, PYD 16 c1pn5A_ 8.7 17 PDB header:apoptosis Chain: A: PDB Molecule:nacht-, lrr- and pyd-containing protein 2; PDBTitle: nmr structure of the nalp1 pyrin domain (pyd) 17 d1a9xa3 8.2 24 Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:BC N-terminal domain-like 18 c2gefA_ 7.3 17 PDB header:hydrolase Chain: A: PDB Molecule:protease vp4; PDBTitle: crystal structure of a novel viral protease with a2 serine/lysine catalytic dyad mechanism 19 c2do9A_ 7.2 16 PDB header:signaling protein Chain: A: PDB Molecule:nacht-, lrr- and pyd-containing protein 10; PDBTitle: solution structure of the pyrin/paad-dapin domain in mouse2 nalp10 (nacht, leucine rich repeat and pyd containing 10)

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