Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	F	S	G	L	L	I	I	L	V	P	L	I	V	G	Y	L	I	P	L	R	Q	Q	A	A	L	K	V	I	N	Q	L	L	S	W	M	V	Y	L	I	L	F	F	M	G	I	S	L	A	F	L	D	N	L	A	S	N	L	L	A
Secondary structure
SS confidence
Disorder		?	?	?	?																				?																									?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	L	H	Y	S	A	V	S	I	T	V	I	L	L	C	N	I	A	A	L	M	W	L	E	R	G	L	P	W	R	N	H	H	Q	Q	E	K	L	P	S	R	I	A	M	A	L	E	S	L	K	L	C	G	V	V	V	I	G	F	A
Secondary structure
SS confidence
Disorder																													?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		I	G	L	S	G	L	A	F	L	Q	H	A	T	E	A	S	E	Y	T	L	I	L	L	L	F	L	V	G	I	Q	L	R	N	N	G	M	T	L	K	Q	I	V	L	N	R	R	G	M	I	V	A	V	V	V	V	V	S	S	L	I
Secondary structure
SS confidence
Disorder											?																			?	?		?	?	?	?	?								?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		G	G	L	I	N	A	F	I	L	D	L	P	I	N	T	A	L	A	M	A	S	G	F	G	W	Y	S	L	S	G	I	L	L	T	E	S	F	G	P	V	I	G	S	A	A	F	F	N	D	L	A	R	E	L	I	A	I	M	L	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.
Sequence		P	G	L	I	R	R	S	R	S	T	A	L	G	L	C	G	A	T	S	M	D	F	T	L	P	V	L	Q	R	T	G	G	L	D	M	V	P	A	A	I	V	H	G	F	I	L	S	L	L	V	P	I	L	I	A	F	F	S	A
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 1zcd chain A Region: 128 - 243 Aligned: 114 Modelled: 116 Confidence: 73.7% Identity: 11% PDB header:membrane protein Chain: A: PDB Molecule:na(+)/h(+) antiporter 1; PDBTitle: crystal structure of the na+/h+ antiporter nhaa Phyre2 PDB 3gra chain A Region: 253 - 276 Aligned: 24 Modelled: 24 Confidence: 23.2% Identity: 13% PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, arac family; PDBTitle: crystal structure of arac family transcriptional regulator from2 pseudomonas putida Phyre2 PDB 2oar chain A Region: 158 - 246 Aligned: 88 Modelled: 89 Confidence: 20.3% Identity: 11% PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: mechanosensitive channel of large conductance (mscl) Phyre2 PDB 2oar chain A domain 1 Region: 166 - 246 Aligned: 79 Modelled: 81 Confidence: 20.1% Identity: 10% Fold: Gated mechanosensitive channel Superfamily: Gated mechanosensitive channel Family: Gated mechanosensitive channel Phyre2 PDB 3pl2 chain D Region: 178 - 209 Aligned: 32 Modelled: 32 Confidence: 16.9% Identity: 22% PDB header:transferase Chain: D: PDB Molecule:sugar kinase, ribokinase family; PDBTitle: crystal structure of a 5-keto-2-deoxygluconokinase (ncgl0155, cgl0158)2 from corynebacterium glutamicum atcc 13032 kitasato at 1.89 a3 resolution Phyre2 PDB 2f02 chain A domain 1 Region: 178 - 209 Aligned: 32 Modelled: 32 Confidence: 16.6% Identity: 22% Fold: Ribokinase-like Superfamily: Ribokinase-like Family: Ribokinase-like Phyre2 PDB 2afb chain A domain 1 Region: 178 - 209 Aligned: 32 Modelled: 32 Confidence: 16.4% Identity: 16% Fold: Ribokinase-like Superfamily: Ribokinase-like Family: Ribokinase-like Phyre2 PDB 1vm7 chain A Region: 178 - 209 Aligned: 32 Modelled: 32 Confidence: 15.0% Identity: 13% Fold: Ribokinase-like Superfamily: Ribokinase-like Family: Ribokinase-like Phyre2 PDB 1cii chain A Region: 199 - 226 Aligned: 28 Modelled: 28 Confidence: 14.2% Identity: 14% PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia Phyre2 PDB 3er6 chain D Region: 253 - 279 Aligned: 27 Modelled: 27 Confidence: 12.6% Identity: 7% PDB header:structural genomics, unknown function Chain: D: PDB Molecule:putative transcriptional regulator protein; PDBTitle: crystal structure of a putative transcriptional regulator2 protein from vibrio parahaemolyticus Phyre2 PDB 3noo chain B Region: 253 - 276 Aligned: 24 Modelled: 24 Confidence: 12.5% Identity: 17% PDB header:lyase Chain: B: PDB Molecule:thij/pfpi family protein; PDBTitle: crystal structure of c101a isocyanide hydratase from pseudomonas2 fluorescens Phyre2 PDB 3b3l chain C Region: 178 - 209 Aligned: 32 Modelled: 32 Confidence: 11.8% Identity: 9% PDB header:transferase Chain: C: PDB Molecule:ketohexokinase; PDBTitle: crystal structures of alternatively-spliced isoforms of human2 ketohexokinase Phyre2 PDB 3iq0 chain B Region: 178 - 209 Aligned: 32 Modelled: 32 Confidence: 9.8% Identity: 22% PDB header:transferase Chain: B: PDB Molecule:putative ribokinase ii; PDBTitle: crystal structure of a putative ribokinase ii in complex2 with atp and mg+2 from e.coli Phyre2 PDB 2ibg chain E domain 1 Region: 197 - 205 Aligned: 9 Modelled: 9 Confidence: 9.4% Identity: 56% Fold: Hedgehog/DD-peptidase Superfamily: Hedgehog/DD-peptidase Family: Hedgehog (development protein), N-terminal signaling domain Phyre2 PDB 2jg1 chain C Region: 178 - 209 Aligned: 32 Modelled: 32 Confidence: 9.4% Identity: 19% PDB header:transferase Chain: C: PDB Molecule:tagatose-6-phosphate kinase; PDBTitle: structure of staphylococcus aureus d-tagatose-6-phosphate2 kinase with cofactor and substrate Phyre2 PDB 3ot1 chain B Region: 253 - 276 Aligned: 24 Modelled: 24 Confidence: 9.0% Identity: 17% PDB header:structural genomics Chain: B: PDB Molecule:4-methyl-5(b-hydroxyethyl)-thiazole monophosphate PDBTitle: crystal structure of vc2308 protein Phyre2 PDB 2dkv chain A Region: 202 - 238 Aligned: 37 Modelled: 37 Confidence: 8.9% Identity: 22% PDB header:hydrolase Chain: A: PDB Molecule:chitinase; PDBTitle: crystal structure of class i chitinase from oryza sativa l.2 japonica Phyre2 PDB 3ewn chain A Region: 253 - 276 Aligned: 24 Modelled: 24 Confidence: 8.6% Identity: 17% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:thij/pfpi family protein; PDBTitle: crystal structure of a thij/pfpi family protein from pseudomonas2 syringae Phyre2 PDB 3d1m chain A domain 1 Region: 197 - 205 Aligned: 9 Modelled: 9 Confidence: 8.1% Identity: 56% Fold: Hedgehog/DD-peptidase Superfamily: Hedgehog/DD-peptidase Family: Hedgehog (development protein), N-terminal signaling domain Phyre2 PDB 2pkk chain A Region: 178 - 209 Aligned: 32 Modelled: 32 Confidence: 7.6% Identity: 13% PDB header:transferase Chain: A: PDB Molecule:adenosine kinase; PDBTitle: crystal structure of m tuberculosis adenosine kinase complexed with 2-2 fluro adenosine Phyre2 1 c1zcdA_ 2 c3graA_ 3 c2oarA_ 4 d2oara1 5 c3pl2D_ 6 d2f02a1 7 d2afba1 8 d1vm7a_ 9 c1ciiA_ 10 c3er6D_ 11 c3nooB_ 12 c3b3lC_ 13 c3iq0B_ 14 d2ibge1 15 c2jg1C_ 16 c3ot1B_ 17 c2dkvA_ 18 c3ewnA_ 19 d3d1ma1 20 c2pkkA_ 21 22 23 24 25 26

Detailed template information

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

1 c1zcdA_ 73.7 11 PDB header:membrane protein Chain: A: PDB Molecule:na(+)/h(+) antiporter 1; PDBTitle: crystal structure of the na+/h+ antiporter nhaa 2 c3graA_ 23.2 13 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, arac family; PDBTitle: crystal structure of arac family transcriptional regulator from2 pseudomonas putida 3 c2oarA_ 20.3 11 PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: mechanosensitive channel of large conductance (mscl) 4 d2oara1 20.1 10 Fold:Gated mechanosensitive channel Superfamily:Gated mechanosensitive channel Family:Gated mechanosensitive channel 5 c3pl2D_ 16.9 22 PDB header:transferase Chain: D: PDB Molecule:sugar kinase, ribokinase family; PDBTitle: crystal structure of a 5-keto-2-deoxygluconokinase (ncgl0155, cgl0158)2 from corynebacterium glutamicum atcc 13032 kitasato at 1.89 a3 resolution 6 d2f02a1 16.6 22 Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like 7 d2afba1 16.4 16 Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like 8 d1vm7a_ 15.0 13 Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like 9 c1ciiA_ 14.2 14 PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia 10 c3er6D_ 12.6 7 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:putative transcriptional regulator protein; PDBTitle: crystal structure of a putative transcriptional regulator2 protein from vibrio parahaemolyticus 11 c3nooB_ 12.5 17 PDB header:lyase Chain: B: PDB Molecule:thij/pfpi family protein; PDBTitle: crystal structure of c101a isocyanide hydratase from pseudomonas2 fluorescens 12 c3b3lC_ 11.8 9 PDB header:transferase Chain: C: PDB Molecule:ketohexokinase; PDBTitle: crystal structures of alternatively-spliced isoforms of human2 ketohexokinase 13 c3iq0B_ 9.8 22 PDB header:transferase Chain: B: PDB Molecule:putative ribokinase ii; PDBTitle: crystal structure of a putative ribokinase ii in complex2 with atp and mg+2 from e.coli 14 d2ibge1 9.4 56 Fold:Hedgehog/DD-peptidase Superfamily:Hedgehog/DD-peptidase Family:Hedgehog (development protein), N-terminal signaling domain 15 c2jg1C_ 9.4 19 PDB header:transferase Chain: C: PDB Molecule:tagatose-6-phosphate kinase; PDBTitle: structure of staphylococcus aureus d-tagatose-6-phosphate2 kinase with cofactor and substrate 16 c3ot1B_ 9.0 17 PDB header:structural genomics Chain: B: PDB Molecule:4-methyl-5(b-hydroxyethyl)-thiazole monophosphate PDBTitle: crystal structure of vc2308 protein 17 c2dkvA_ 8.9 22 PDB header:hydrolase Chain: A: PDB Molecule:chitinase; PDBTitle: crystal structure of class i chitinase from oryza sativa l.2 japonica 18 c3ewnA_ 8.6 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:thij/pfpi family protein; PDBTitle: crystal structure of a thij/pfpi family protein from pseudomonas2 syringae 19 d3d1ma1 8.1 56 Fold:Hedgehog/DD-peptidase Superfamily:Hedgehog/DD-peptidase Family:Hedgehog (development protein), N-terminal signaling domain 20 c2pkkA_ 7.6 13 PDB header:transferase Chain: A: PDB Molecule:adenosine kinase; PDBTitle: crystal structure of m tuberculosis adenosine kinase complexed with 2-2 fluro adenosine 21 c3m1nB_ not modelled 7.5 56 PDB header:signaling protein Chain: B: PDB Molecule:sonic hedgehog protein; PDBTitle: crystal structure of human sonic hedgehog n-terminal domain 22 d2ab0a1 not modelled 7.5 21 Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:DJ-1/PfpI 23 d1rkda_ not modelled 7.4 26 Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like 24 c3b1qD_ not modelled 6.2 26 PDB header:transferase Chain: D: PDB Molecule:ribokinase, putative; PDBTitle: structure of burkholderia thailandensis nucleoside kinase (bthnk) in2 complex with inosine 25 c3gbuD_ not modelled 6.1 16 PDB header:transferase Chain: D: PDB Molecule:uncharacterized sugar kinase ph1459; PDBTitle: crystal structure of an uncharacterized sugar kinase ph1459 from2 pyrococcus horikoshii in complex with atp 26 c3k11A_ not modelled 5.8 19 PDB header:hydrolase Chain: A: PDB Molecule:putative glycosyl hydrolase; PDBTitle: crystal structure of putative glycosyl hydrolase (np_813087.1) from2 bacteroides thetaiotaomicron vpi-5482 at 1.80 a resolution

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