Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	E	P	L	K	P	R	I	D	F	D	G	P	L	E	V	D	Q	N	P	K	F	R	A	Q	Q	T	F	D	E	N	Q	A	Q	N	F	A	P	A	T	L	D	E	A	Q	E	E	E	G	Q	V	E	A	V	M	D	A	A	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		R	P	K	R	S	L	W	R	K	M	V	M	G	G	L	A	L	F	G	A	S	V	V	G	Q	G	V	Q	W	T	M	N	A	W	Q	T	Q	D	W	V	A	L	G	G	C	A	A	G	A	L	I	I	G	A	G	V	G	S	V	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		T	E	W	R	R	L	W	R	L	R	Q	R	A	H	E	R	D	E	A	R	D	L	L	H	S	H	G	T	G	K	G	R	A	F	C	E	K	L	A	Q	Q	A	G	I	D	Q	S	H	P	A	L	Q	R	W	Y	A	S	I	H	E
Secondary structure
SS confidence
Disorder											?	?	?												?	?	?	?	?	?	?															?	?													?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		T	Q	N	D	R	E	V	V	S	L	Y	A	H	L	V	Q	P	V	L	D	A	Q	A	R	R	E	I	S	R	S	A	A	E	S	T	L	M	I	A	V	S	P	L	A	L	V	D	M	A	F	I	A	W	R	N	L	R	L	I	N
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		R	I	A	T	L	Y	G	I	E	L	G	Y	Y	S	R	L	R	L	F	K	L	V	L	L	N	I	A	F	A	G	A	S	E	L	V	R	E	V	G	M	D	W	M	S	Q	D	L	A	A	R	L	S	T	R	A	A	Q	G	I	G
Secondary structure
SS confidence
Disorder																																													?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.
Sequence		A	G	L	L	T	A	R	L	G	I	K	A	M	E	L	C	R	P	L	P	W	I	D	D	D	K	P	R	L	G	D	F	R	R	Q	L	I	G	Q	V	K	E	T	L	Q	K	G	K	T	P	S	E	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 1z9h chain A domain 1 Region: 67 - 143 Aligned: 69 Modelled: 77 Confidence: 37.0% Identity: 23% Fold: GST C-terminal domain-like Superfamily: GST C-terminal domain-like Family: Glutathione S-transferase (GST), C-terminal domain Phyre2 PDB 3n8u chain B Region: 129 - 250 Aligned: 117 Modelled: 122 Confidence: 34.8% Identity: 15% PDB header:hydrolase Chain: B: PDB Molecule:imelysin peptidase; PDBTitle: crystal structure of an imelysin peptidase (bacova_03801) from2 bacteroides ovatus at 1.44 a resolution Phyre2 PDB 1tq4 chain A Region: 165 - 249 Aligned: 84 Modelled: 85 Confidence: 31.1% Identity: 7% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: G proteins Phyre2 PDB 1qs0 chain A Region: 176 - 254 Aligned: 79 Modelled: 79 Confidence: 29.5% Identity: 13% Fold: Thiamin diphosphate-binding fold (THDP-binding) Superfamily: Thiamin diphosphate-binding fold (THDP-binding) Family: Branched-chain alpha-keto acid dehydrogenase PP module Phyre2 PDB 1wpg chain A domain 4 Region: 57 - 124 Aligned: 68 Modelled: 68 Confidence: 22.5% Identity: 13% Fold: Calcium ATPase, transmembrane domain M Superfamily: Calcium ATPase, transmembrane domain M Family: Calcium ATPase, transmembrane domain M Phyre2 PDB 2id3 chain A domain 2 Region: 146 - 239 Aligned: 93 Modelled: 94 Confidence: 17.7% Identity: 12% Fold: Tetracyclin repressor-like, C-terminal domain Superfamily: Tetracyclin repressor-like, C-terminal domain Family: Tetracyclin repressor-like, C-terminal domain Phyre2 PDB 2fq4 chain A domain 2 Region: 149 - 239 Aligned: 87 Modelled: 91 Confidence: 11.2% Identity: 13% Fold: Tetracyclin repressor-like, C-terminal domain Superfamily: Tetracyclin repressor-like, C-terminal domain Family: Tetracyclin repressor-like, C-terminal domain Phyre2 PDB 2bfd chain A domain 1 Region: 176 - 254 Aligned: 76 Modelled: 79 Confidence: 10.2% Identity: 17% Fold: Thiamin diphosphate-binding fold (THDP-binding) Superfamily: Thiamin diphosphate-binding fold (THDP-binding) Family: Branched-chain alpha-keto acid dehydrogenase PP module Phyre2 PDB 3ku7 chain B Region: 327 - 348 Aligned: 22 Modelled: 22 Confidence: 9.6% Identity: 14% PDB header:cell cycle Chain: B: PDB Molecule:cell division topological specificity factor; PDBTitle: crystal structure of helicobacter pylori mine, a cell division2 topological specificity factor Phyre2 PDB 1mhs chain A Region: 10 - 131 Aligned: 115 Modelled: 122 Confidence: 9.4% Identity: 11% PDB header:membrane protein, proton transport Chain: A: PDB Molecule:plasma membrane atpase; PDBTitle: model of neurospora crassa proton atpase Phyre2 PDB 2voy chain B Region: 57 - 94 Aligned: 38 Modelled: 38 Confidence: 8.6% Identity: 16% PDB header:hydrolase Chain: B: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus Phyre2 PDB 1qhb chain A Region: 312 - 342 Aligned: 31 Modelled: 31 Confidence: 8.4% Identity: 26% Fold: Acid phosphatase/Vanadium-dependent haloperoxidase Superfamily: Acid phosphatase/Vanadium-dependent haloperoxidase Family: Haloperoxidase (bromoperoxidase) Phyre2 PDB 3trb chain A Region: 235 - 253 Aligned: 19 Modelled: 19 Confidence: 6.7% Identity: 16% PDB header:dna binding protein Chain: A: PDB Molecule:virulence-associated protein i; PDBTitle: structure of an addiction module antidote protein of a higa (higa)2 family from coxiella burnetii Phyre2 PDB 2xyk chain B Region: 159 - 211 Aligned: 53 Modelled: 53 Confidence: 6.2% Identity: 6% PDB header:oxygen storage/transport Chain: B: PDB Molecule:2-on-2 hemoglobin; PDBTitle: group ii 2-on-2 hemoglobin from the plant pathogen2 agrobacterium tumefaciens Phyre2 PDB 2eby chain A Region: 235 - 253 Aligned: 19 Modelled: 19 Confidence: 6.0% Identity: 11% PDB header:transcription Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq; PDBTitle: crystal structure of a hypothetical protein from e. coli Phyre2 PDB 2ict chain A domain 1 Region: 235 - 253 Aligned: 19 Modelled: 19 Confidence: 6.0% Identity: 5% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: SinR domain-like Phyre2 PDB 2ap1 chain A domain 1 Region: 171 - 219 Aligned: 44 Modelled: 49 Confidence: 5.9% Identity: 14% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: ROK Phyre2 PDB 3few chain X Region: 67 - 120 Aligned: 54 Modelled: 54 Confidence: 5.8% Identity: 15% PDB header:immune system Chain: X: PDB Molecule:colicin s4; PDBTitle: structure and function of colicin s4, a colicin with a2 duplicated receptor binding domain Phyre2 PDB 2rpa chain A Region: 152 - 189 Aligned: 38 Modelled: 38 Confidence: 5.3% Identity: 11% PDB header:hydrolase Chain: A: PDB Molecule:katanin p60 atpase-containing subunit a1; PDBTitle: the solution structure of n-terminal domain of microtubule severing2 enzyme Phyre2 PDB 1o8t chain A Region: 171 - 233 Aligned: 59 Modelled: 63 Confidence: 5.2% Identity: 19% PDB header:lipid transport Chain: A: PDB Molecule:apolipoprotein c-ii; PDBTitle: global structure and dynamics of human apolipoprotein cii2 in complex with micelles: evidence for increased mobility3 of the helix involvved in the activation of lipoprotein4 lipase. Phyre2 1 d1z9ha1 2 c3n8uB_ 3 d1tq4a_ 4 d1qs0a_ 5 d1wpga4 6 d2id3a2 7 d2fq4a2 8 d2bfda1 9 c3ku7B_ 10 c1mhsA_ 11 c2voyB_ 12 d1qhba_ 13 c3trbA_ 14 c2xykB_ 15 c2ebyA_ 16 d2icta1 17 d2ap1a1 18 c3fewX_ 19 c2rpaA_ 20 c1o8tA_ 21 22

Detailed template information

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

1 d1z9ha1 37.0 23 Fold:GST C-terminal domain-like Superfamily:GST C-terminal domain-like Family:Glutathione S-transferase (GST), C-terminal domain 2 c3n8uB_ 34.8 15 PDB header:hydrolase Chain: B: PDB Molecule:imelysin peptidase; PDBTitle: crystal structure of an imelysin peptidase (bacova_03801) from2 bacteroides ovatus at 1.44 a resolution 3 d1tq4a_ 31.1 7 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:G proteins 4 d1qs0a_ 29.5 13 Fold:Thiamin diphosphate-binding fold (THDP-binding) Superfamily:Thiamin diphosphate-binding fold (THDP-binding) Family:Branched-chain alpha-keto acid dehydrogenase PP module 5 d1wpga4 22.5 13 Fold:Calcium ATPase, transmembrane domain M Superfamily:Calcium ATPase, transmembrane domain M Family:Calcium ATPase, transmembrane domain M 6 d2id3a2 17.7 12 Fold:Tetracyclin repressor-like, C-terminal domain Superfamily:Tetracyclin repressor-like, C-terminal domain Family:Tetracyclin repressor-like, C-terminal domain 7 d2fq4a2 11.2 13 Fold:Tetracyclin repressor-like, C-terminal domain Superfamily:Tetracyclin repressor-like, C-terminal domain Family:Tetracyclin repressor-like, C-terminal domain 8 d2bfda1 10.2 17 Fold:Thiamin diphosphate-binding fold (THDP-binding) Superfamily:Thiamin diphosphate-binding fold (THDP-binding) Family:Branched-chain alpha-keto acid dehydrogenase PP module 9 c3ku7B_ 9.6 14 PDB header:cell cycle Chain: B: PDB Molecule:cell division topological specificity factor; PDBTitle: crystal structure of helicobacter pylori mine, a cell division2 topological specificity factor 10 c1mhsA_ 9.4 11 PDB header:membrane protein, proton transport Chain: A: PDB Molecule:plasma membrane atpase; PDBTitle: model of neurospora crassa proton atpase 11 c2voyB_ 8.6 16 PDB header:hydrolase Chain: B: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus 12 d1qhba_ 8.4 26 Fold:Acid phosphatase/Vanadium-dependent haloperoxidase Superfamily:Acid phosphatase/Vanadium-dependent haloperoxidase Family:Haloperoxidase (bromoperoxidase) 13 c3trbA_ 6.7 16 PDB header:dna binding protein Chain: A: PDB Molecule:virulence-associated protein i; PDBTitle: structure of an addiction module antidote protein of a higa (higa)2 family from coxiella burnetii 14 c2xykB_ 6.2 6 PDB header:oxygen storage/transport Chain: B: PDB Molecule:2-on-2 hemoglobin; PDBTitle: group ii 2-on-2 hemoglobin from the plant pathogen2 agrobacterium tumefaciens 15 c2ebyA_ 6.0 11 PDB header:transcription Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq; PDBTitle: crystal structure of a hypothetical protein from e. coli 16 d2icta1 6.0 5 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 17 d2ap1a1 5.9 14 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:ROK 18 c3fewX_ 5.8 15 PDB header:immune system Chain: X: PDB Molecule:colicin s4; PDBTitle: structure and function of colicin s4, a colicin with a2 duplicated receptor binding domain 19 c2rpaA_ 5.3 11 PDB header:hydrolase Chain: A: PDB Molecule:katanin p60 atpase-containing subunit a1; PDBTitle: the solution structure of n-terminal domain of microtubule severing2 enzyme 20 c1o8tA_ 5.2 19 PDB header:lipid transport Chain: A: PDB Molecule:apolipoprotein c-ii; PDBTitle: global structure and dynamics of human apolipoprotein cii2 in complex with micelles: evidence for increased mobility3 of the helix involvved in the activation of lipoprotein4 lipase. 21 c1zvaA_ not modelled 5.1 18 PDB header:viral protein Chain: A: PDB Molecule:e2 glycoprotein; PDBTitle: a structure-based mechanism of sars virus membrane fusion 22 d2aa4a2 not modelled 5.1 20 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:ROK

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