Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	G	K	R	I	S	R	E	K	L	T	I	K	K	M	I	D	L	Y	Q	A	K	C	P	Q	A	S	A	E	P	E	H	Y	E	A	L	F	V	Y	A	Q	K	R	L	D	K	C	V	F	G	E	E	K	P	A	C	K	Q	C
Secondary structure
SS confidence
Disorder		?	?	?	?																				?	?	?	?	?	?	?	?																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.
Sequence		P	V	H	C	Y	Q	P	A	K	R	E	E	M	K	Q	I	M	R	W	A	G	P	R	M	L	W	R	H	P	I	L	T	V	R	H	L	I	D	D	K	R	P	V	P	E	L	P	E	K	Y	R	P	K	K	P	H	E
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 2gvs chain A Region: 54 - 79 Aligned: 21 Modelled: 26 Confidence: 27.5% Identity: 24% PDB header:lipid binding protein Chain: A: PDB Molecule:chemosensory protein csp-sg4; PDBTitle: nmr solution structure of cspsg4 Phyre2 PDB 1kx9 chain B Region: 54 - 79 Aligned: 21 Modelled: 26 Confidence: 25.3% Identity: 19% Fold: alpha-alpha superhelix Superfamily: Chemosensory protein Csp2 Family: Chemosensory protein Csp2 Phyre2 PDB 1n8v chain A Region: 54 - 79 Aligned: 21 Modelled: 26 Confidence: 22.5% Identity: 19% Fold: alpha-alpha superhelix Superfamily: Chemosensory protein Csp2 Family: Chemosensory protein Csp2 Phyre2 PDB 1wm7 chain A Region: 56 - 64 Aligned: 9 Modelled: 9 Confidence: 17.7% Identity: 56% Fold: Knottins (small inhibitors, toxins, lectins) Superfamily: Scorpion toxin-like Family: Short-chain scorpion toxins Phyre2 PDB 1b25 chain A domain 1 Region: 56 - 64 Aligned: 9 Modelled: 9 Confidence: 16.3% Identity: 33% Fold: Aldehyde ferredoxin oxidoreductase, C-terminal domains Superfamily: Aldehyde ferredoxin oxidoreductase, C-terminal domains Family: Aldehyde ferredoxin oxidoreductase, C-terminal domains Phyre2 PDB 1aor chain A domain 1 Region: 56 - 64 Aligned: 9 Modelled: 9 Confidence: 16.0% Identity: 44% Fold: Aldehyde ferredoxin oxidoreductase, C-terminal domains Superfamily: Aldehyde ferredoxin oxidoreductase, C-terminal domains Family: Aldehyde ferredoxin oxidoreductase, C-terminal domains Phyre2 PDB 2emc chain A Region: 50 - 60 Aligned: 11 Modelled: 11 Confidence: 12.4% Identity: 18% PDB header:transcription Chain: A: PDB Molecule:zinc finger protein 473; PDBTitle: solution structure of the c2h2 type zinc finger (region 641-2 673) of human zinc finger protein 473 Phyre2 PDB 2z2q chain F Region: 68 - 80 Aligned: 13 Modelled: 13 Confidence: 12.0% Identity: 23% PDB header:virus/rna Chain: F: PDB Molecule:coat protein gamma; PDBTitle: crystal structure of flock house virus Phyre2 PDB 1aor chain B Region: 56 - 64 Aligned: 9 Modelled: 9 Confidence: 11.5% Identity: 44% PDB header:oxidoreductase Chain: B: PDB Molecule:aldehyde ferredoxin oxidoreductase; PDBTitle: structure of a hyperthermophilic tungstopterin enzyme,2 aldehyde ferredoxin oxidoreductase Phyre2 PDB 1x6v chain A domain 2 Region: 77 - 92 Aligned: 16 Modelled: 16 Confidence: 10.9% Identity: 31% Fold: Adenine nucleotide alpha hydrolase-like Superfamily: Nucleotidylyl transferase Family: ATP sulfurylase catalytic domain Phyre2 PDB 2a05 chain A Region: 56 - 64 Aligned: 9 Modelled: 9 Confidence: 10.7% Identity: 44% PDB header:signaling protein Chain: A: PDB Molecule:cysteine-rich secretory protein-2; PDBTitle: the cysteine-rich secretory protein domain of tpx-1 is2 related to ion channel toxins and regulates ryanodine3 receptor ca2+ signaling Phyre2 PDB 1jhd chain A domain 2 Region: 77 - 92 Aligned: 16 Modelled: 16 Confidence: 10.2% Identity: 38% Fold: Adenine nucleotide alpha hydrolase-like Superfamily: Nucleotidylyl transferase Family: ATP sulfurylase catalytic domain Phyre2 PDB 1b4n chain D Region: 56 - 64 Aligned: 9 Modelled: 9 Confidence: 8.9% Identity: 33% PDB header:oxidoreductase Chain: D: PDB Molecule:formaldehyde ferredoxin oxidoreductase; PDBTitle: formaldehyde ferredoxin oxidoreductase from pyrococcus furiosus,2 complexed with glutarate Phyre2 PDB 1xx5 chain B Region: 49 - 66 Aligned: 17 Modelled: 18 Confidence: 8.8% Identity: 29% PDB header:toxin Chain: B: PDB Molecule:natrin 1; PDBTitle: crystal structure of natrin from naja atra snake venom Phyre2 PDB 1qas chain A domain 3 Region: 62 - 89 Aligned: 27 Modelled: 28 Confidence: 8.8% Identity: 22% Fold: TIM beta/alpha-barrel Superfamily: PLC-like phosphodiesterases Family: Mammalian PLC Phyre2 PDB 1v47 chain A domain 2 Region: 77 - 92 Aligned: 16 Modelled: 16 Confidence: 8.7% Identity: 38% Fold: Adenine nucleotide alpha hydrolase-like Superfamily: Nucleotidylyl transferase Family: ATP sulfurylase catalytic domain Phyre2 PDB 2qjf chain B Region: 77 - 92 Aligned: 16 Modelled: 16 Confidence: 8.2% Identity: 31% PDB header:transferase Chain: B: PDB Molecule:bifunctional 3'-phosphoadenosine 5'- PDBTitle: crystal structure of atp-sulfurylase domain of human paps2 synthetase 1 Phyre2 PDB 2abk chain A Region: 48 - 62 Aligned: 13 Modelled: 15 Confidence: 7.1% Identity: 38% Fold: DNA-glycosylase Superfamily: DNA-glycosylase Family: Endonuclease III Phyre2 PDB 2kdn chain A Region: 62 - 75 Aligned: 14 Modelled: 14 Confidence: 6.7% Identity: 21% PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein pfe0790c; PDBTitle: solution structure of pfe0790c, a putative bola-like2 protein from the protozoan parasite plasmodium falciparum. Phyre2 PDB 1jhd chain A Region: 77 - 92 Aligned: 16 Modelled: 16 Confidence: 6.5% Identity: 38% PDB header:transferase Chain: A: PDB Molecule:sulfate adenylyltransferase; PDBTitle: crystal structure of bacterial atp sulfurylase from the2 riftia pachyptila symbiont Phyre2 1 c2gvsA_ 2 d1kx9b_ 3 d1n8va_ 4 d1wm7a_ 5 d1b25a1 6 d1aora1 7 c2emcA_ 8 c2z2qF_ 9 c1aorB_ 10 d1x6va2 11 c2a05A_ 12 d1jhda2 13 c1b4nD_ 14 c1xx5B_ 15 d1qasa3 16 d1v47a2 17 c2qjfB_ 18 d2abka_ 19 c2kdnA_ 20 c1jhdA_ 21 22 23 24 25 26 27 28

Detailed template information

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

1 c2gvsA_ 27.5 24 PDB header:lipid binding protein Chain: A: PDB Molecule:chemosensory protein csp-sg4; PDBTitle: nmr solution structure of cspsg4 2 d1kx9b_ 25.3 19 Fold:alpha-alpha superhelix Superfamily:Chemosensory protein Csp2 Family:Chemosensory protein Csp2 3 d1n8va_ 22.5 19 Fold:alpha-alpha superhelix Superfamily:Chemosensory protein Csp2 Family:Chemosensory protein Csp2 4 d1wm7a_ 17.7 56 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Scorpion toxin-like Family:Short-chain scorpion toxins 5 d1b25a1 16.3 33 Fold:Aldehyde ferredoxin oxidoreductase, C-terminal domains Superfamily:Aldehyde ferredoxin oxidoreductase, C-terminal domains Family:Aldehyde ferredoxin oxidoreductase, C-terminal domains 6 d1aora1 16.0 44 Fold:Aldehyde ferredoxin oxidoreductase, C-terminal domains Superfamily:Aldehyde ferredoxin oxidoreductase, C-terminal domains Family:Aldehyde ferredoxin oxidoreductase, C-terminal domains 7 c2emcA_ 12.4 18 PDB header:transcription Chain: A: PDB Molecule:zinc finger protein 473; PDBTitle: solution structure of the c2h2 type zinc finger (region 641-2 673) of human zinc finger protein 473 8 c2z2qF_ 12.0 23 PDB header:virus/rna Chain: F: PDB Molecule:coat protein gamma; PDBTitle: crystal structure of flock house virus 9 c1aorB_ 11.5 44 PDB header:oxidoreductase Chain: B: PDB Molecule:aldehyde ferredoxin oxidoreductase; PDBTitle: structure of a hyperthermophilic tungstopterin enzyme,2 aldehyde ferredoxin oxidoreductase 10 d1x6va2 10.9 31 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:ATP sulfurylase catalytic domain 11 c2a05A_ 10.7 44 PDB header:signaling protein Chain: A: PDB Molecule:cysteine-rich secretory protein-2; PDBTitle: the cysteine-rich secretory protein domain of tpx-1 is2 related to ion channel toxins and regulates ryanodine3 receptor ca2+ signaling 12 d1jhda2 10.2 38 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:ATP sulfurylase catalytic domain 13 c1b4nD_ 8.9 33 PDB header:oxidoreductase Chain: D: PDB Molecule:formaldehyde ferredoxin oxidoreductase; PDBTitle: formaldehyde ferredoxin oxidoreductase from pyrococcus furiosus,2 complexed with glutarate 14 c1xx5B_ 8.8 29 PDB header:toxin Chain: B: PDB Molecule:natrin 1; PDBTitle: crystal structure of natrin from naja atra snake venom 15 d1qasa3 8.8 22 Fold:TIM beta/alpha-barrel Superfamily:PLC-like phosphodiesterases Family:Mammalian PLC 16 d1v47a2 8.7 38 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:ATP sulfurylase catalytic domain 17 c2qjfB_ 8.2 31 PDB header:transferase Chain: B: PDB Molecule:bifunctional 3'-phosphoadenosine 5'- PDBTitle: crystal structure of atp-sulfurylase domain of human paps2 synthetase 1 18 d2abka_ 7.1 38 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Endonuclease III 19 c2kdnA_ 6.7 21 PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein pfe0790c; PDBTitle: solution structure of pfe0790c, a putative bola-like2 protein from the protozoan parasite plasmodium falciparum. 20 c1jhdA_ 6.5 38 PDB header:transferase Chain: A: PDB Molecule:sulfate adenylyltransferase; PDBTitle: crystal structure of bacterial atp sulfurylase from the2 riftia pachyptila symbiont 21 c1xnjB_ not modelled 6.4 31 PDB header:transferase Chain: B: PDB Molecule:bifunctional 3'-phosphoadenosine 5'-phosphosulfate PDBTitle: aps complex of human paps synthetase 1 22 c1du9A_ not modelled 6.4 63 PDB header:toxin Chain: A: PDB Molecule:bmp02 neurotoxin; PDBTitle: solution structure of bmp02, a natural scorpion toxin which2 blocks apamin-sensitive calcium-activated potassium3 channels, 25 structures 23 c1v47B_ not modelled 6.1 38 PDB header:transferase Chain: B: PDB Molecule:atp sulfurylase; PDBTitle: crystal structure of atp sulfurylase from thermus2 thermophillus hb8 in complex with aps 24 d1rrqa1 not modelled 5.9 50 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 25 d1acwa_ not modelled 5.9 56 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Scorpion toxin-like Family:Short-chain scorpion toxins 26 d2zjr41 not modelled 5.9 44 Fold:Ribosomal protein L36 Superfamily:Ribosomal protein L36 Family:Ribosomal protein L36 27 c3pm2A_ not modelled 5.7 31 PDB header:transport protein Chain: A: PDB Molecule:odorant binding protein (agap007287-pa); PDBTitle: crystal structure of a novel type of odorant binding protein from2 anopheles gambiae belonging to the c+ class 28 d2zkmx4 not modelled 5.2 24 Fold:TIM beta/alpha-barrel Superfamily:PLC-like phosphodiesterases Family:Mammalian PLC

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