Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	N	S	V	T	N	F	E	M	S	S	V	L	P	G	K	K	P	C	Q	G	K	N	N	E	S	Q	V	V	Q	T	T	P	I	K	K	H	S	V	T	F	K	N	Q	S	S	L	G	V	I	D	H	Y	A	R	L	T	N	K
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?					?			?	?	?	?	?	?	?	?	?	?	?	?		?			?		?			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	H	S	S	V	I	A	E	V	V	D	L	A	I	P	I	L	E	K	C	N	R	H	N	W	S	I	N	E	I	K	N	D	L	L	K	F	S	I	K	E	S	I	N	R	S	R	G	K	T	E	V	T	L	E	E	Y	C	S	L
Secondary structure
SS confidence
Disorder		?																																			?	?			?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		I	W	K	T	N	I	M	S	P	L	K	I	P	I	A	D	Y	F	Q	L	N	A	N	D	E	F	M	G	K	D	E	K	T	V	I	R	E	R	L	S	S	L	R	E	N	Y	D	M	E	K	A	I	Y	I	Y	N	Q	R	H	F
Secondary structure
SS confidence
Disorder																				?	?	?	?	?	?	?	?	?	?	?	?										?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		D	V	K	H	Q	S	V	S	G	Y	S	N	I	I	L	I	H	R	T	T	F	E	G	Y	Y	F	D	A	G	Q	A	L	L	L	S	T	S	Q	L	I	I	F	G	I	N	E	V	L	R	R	K	G	I	V	M	P	Y	P	V	V
Secondary structure
SS confidence
Disorder																																															?			?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.
Sequence		C	W	I	D	I	Y	H	V	N	E	M	V	V	M	L	P	V	L	R	K	T	D	V	S	N	R	V	N	V	P	D	D	I	I	I	N	P	Y	S	Q	E	S	R	T
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 3ebk chain A Region: 219 - 253 Aligned: 27 Modelled: 35 Confidence: 48.0% Identity: 33% PDB header:allergen Chain: A: PDB Molecule:allergen bla g 4; PDBTitle: crystal structure of major allergens, bla g 4 from2 cockroaches Phyre2 PDB 1ksi chain A Region: 164 - 208 Aligned: 45 Modelled: 45 Confidence: 34.0% Identity: 18% PDB header:oxidoreductase Chain: A: PDB Molecule:copper amine oxidase; PDBTitle: crystal structure of a eukaryotic (pea seedling) copper-containing2 amine oxidase at 2.2a resolution Phyre2 PDB 3loy chain B Region: 164 - 208 Aligned: 45 Modelled: 45 Confidence: 28.0% Identity: 9% PDB header:oxidoreductase Chain: B: PDB Molecule:copper amine oxidase; PDBTitle: crystal structure of a copper-containing benzylamine oxidase from2 hansenula polymorpha Phyre2 PDB 2cs0 chain A domain 1 Region: 186 - 239 Aligned: 54 Modelled: 54 Confidence: 24.6% Identity: 7% Fold: SH2-like Superfamily: SH2 domain Family: SH2 domain Phyre2 PDB 2cwo chain D Region: 51 - 62 Aligned: 12 Modelled: 12 Confidence: 19.1% Identity: 25% PDB header:rna binding protein Chain: D: PDB Molecule:rna silencing suppressor; PDBTitle: crystal structure of rna silencing suppressor p21 from beet yellows2 virus Phyre2 PDB 2aze chain A domain 1 Region: 203 - 212 Aligned: 10 Modelled: 10 Confidence: 18.3% Identity: 20% Fold: E2F-DP heterodimerization region Superfamily: E2F-DP heterodimerization region Family: DP dimerization segment Phyre2 PDB 1d6u chain B Region: 164 - 208 Aligned: 45 Modelled: 45 Confidence: 18.0% Identity: 20% PDB header:oxidoreductase Chain: B: PDB Molecule:copper amine oxidase; PDBTitle: crystal structure of e. coli amine oxidase anaerobically reduced with2 beta-phenylethylamine Phyre2 PDB 3hiz chain B Region: 186 - 239 Aligned: 52 Modelled: 54 Confidence: 17.1% Identity: 21% PDB header:transferase/oncoprotein Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit PDBTitle: crystal structure of p110alpha h1047r mutant in complex with2 nish2 of p85alpha Phyre2 PDB 1x37 chain A Region: 35 - 56 Aligned: 22 Modelled: 22 Confidence: 16.1% Identity: 32% PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent protease la 1; PDBTitle: structure of bacillus subtilis lon protease ssd domain Phyre2 PDB 1kcf chain A domain 1 Region: 48 - 70 Aligned: 23 Modelled: 23 Confidence: 16.0% Identity: 30% Fold: LEM/SAP HeH motif Superfamily: SAP domain Family: SAP domain Phyre2 PDB 3rpj chain A Region: 202 - 217 Aligned: 15 Modelled: 16 Confidence: 15.8% Identity: 20% PDB header:transcription regulator Chain: A: PDB Molecule:curlin genes transcriptional regulator; PDBTitle: structure of a curlin genes transcriptional regulator protein from2 proteus mirabilis hi4320. Phyre2 PDB 2al6 chain A domain 2 Region: 51 - 66 Aligned: 16 Modelled: 16 Confidence: 15.6% Identity: 50% Fold: PH domain-like barrel Superfamily: PH domain-like Family: Third domain of FERM Phyre2 PDB 1qzm chain A Region: 35 - 56 Aligned: 22 Modelled: 22 Confidence: 14.6% Identity: 32% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Extended AAA-ATPase domain Phyre2 PDB 1w7c chain A Region: 164 - 208 Aligned: 43 Modelled: 43 Confidence: 13.7% Identity: 26% PDB header:oxidoreductase Chain: A: PDB Molecule:lysyl oxidase; PDBTitle: pplo at 1.23 angstroms Phyre2 PDB 1qmg chain A domain 1 Region: 75 - 123 Aligned: 39 Modelled: 49 Confidence: 12.6% Identity: 31% Fold: 6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily: 6-phosphogluconate dehydrogenase C-terminal domain-like Family: Acetohydroxy acid isomeroreductase (ketol-acid reductoisomerase, KARI) Phyre2 PDB 2oqe chain A domain 1 Region: 164 - 208 Aligned: 45 Modelled: 45 Confidence: 11.9% Identity: 13% Fold: Supersandwich Superfamily: Amine oxidase catalytic domain Family: Amine oxidase catalytic domain Phyre2 PDB 3cuq chain D Region: 49 - 69 Aligned: 21 Modelled: 21 Confidence: 11.5% Identity: 19% PDB header:protein transport Chain: D: PDB Molecule:vacuolar protein-sorting-associated protein 25; PDBTitle: integrated structural and functional model of the human escrt-ii2 complex Phyre2 PDB 1gng chain X Region: 218 - 230 Aligned: 13 Modelled: 13 Confidence: 11.0% Identity: 54% PDB header:transferase Chain: X: PDB Molecule:frattide; PDBTitle: glycogen synthase kinase-3 beta (gsk3) complex with frattide2 peptide Phyre2 PDB 2zme chain D Region: 49 - 69 Aligned: 21 Modelled: 21 Confidence: 10.8% Identity: 19% PDB header:protein transport Chain: D: PDB Molecule:vacuolar protein-sorting-associated protein 25; PDBTitle: integrated structural and functional model of the human escrt-ii2 complex Phyre2 PDB 3nbb chain C Region: 164 - 208 Aligned: 45 Modelled: 45 Confidence: 10.7% Identity: 13% PDB header:oxidoreductase Chain: C: PDB Molecule:peroxisomal primary amine oxidase; PDBTitle: crystal structure of mutant y305f expressed in e. coli in the copper2 amine oxidase from hansenula polymorpha Phyre2 1 c3ebkA_ 2 c1ksiA_ 3 c3loyB_ 4 d2cs0a1 5 c2cwoD_ 6 d2azea1 7 c1d6uB_ 8 c3hizB_ 9 c1x37A_ 10 d1kcfa1 11 c3rpjA_ 12 d2al6a2 13 d1qzma_ 14 c1w7cA_ 15 d1qmga1 16 d2oqea1 17 c3cuqD_ 18 c1gngX_ 19 c2zmeD_ 20 c3nbbC_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55

Detailed template information

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

1 c3ebkA_ 48.0 33 PDB header:allergen Chain: A: PDB Molecule:allergen bla g 4; PDBTitle: crystal structure of major allergens, bla g 4 from2 cockroaches 2 c1ksiA_ 34.0 18 PDB header:oxidoreductase Chain: A: PDB Molecule:copper amine oxidase; PDBTitle: crystal structure of a eukaryotic (pea seedling) copper-containing2 amine oxidase at 2.2a resolution 3 c3loyB_ 28.0 9 PDB header:oxidoreductase Chain: B: PDB Molecule:copper amine oxidase; PDBTitle: crystal structure of a copper-containing benzylamine oxidase from2 hansenula polymorpha 4 d2cs0a1 24.6 7 Fold:SH2-like Superfamily:SH2 domain Family:SH2 domain 5 c2cwoD_ 19.1 25 PDB header:rna binding protein Chain: D: PDB Molecule:rna silencing suppressor; PDBTitle: crystal structure of rna silencing suppressor p21 from beet yellows2 virus 6 d2azea1 18.3 20 Fold:E2F-DP heterodimerization region Superfamily:E2F-DP heterodimerization region Family:DP dimerization segment 7 c1d6uB_ 18.0 20 PDB header:oxidoreductase Chain: B: PDB Molecule:copper amine oxidase; PDBTitle: crystal structure of e. coli amine oxidase anaerobically reduced with2 beta-phenylethylamine 8 c3hizB_ 17.1 21 PDB header:transferase/oncoprotein Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit PDBTitle: crystal structure of p110alpha h1047r mutant in complex with2 nish2 of p85alpha 9 c1x37A_ 16.1 32 PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent protease la 1; PDBTitle: structure of bacillus subtilis lon protease ssd domain 10 d1kcfa1 16.0 30 Fold:LEM/SAP HeH motif Superfamily:SAP domain Family:SAP domain 11 c3rpjA_ 15.8 20 PDB header:transcription regulator Chain: A: PDB Molecule:curlin genes transcriptional regulator; PDBTitle: structure of a curlin genes transcriptional regulator protein from2 proteus mirabilis hi4320. 12 d2al6a2 15.6 50 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Third domain of FERM 13 d1qzma_ 14.6 32 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Extended AAA-ATPase domain 14 c1w7cA_ 13.7 26 PDB header:oxidoreductase Chain: A: PDB Molecule:lysyl oxidase; PDBTitle: pplo at 1.23 angstroms 15 d1qmga1 12.6 31 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like Family:Acetohydroxy acid isomeroreductase (ketol-acid reductoisomerase, KARI) 16 d2oqea1 11.9 13 Fold:Supersandwich Superfamily:Amine oxidase catalytic domain Family:Amine oxidase catalytic domain 17 c3cuqD_ 11.5 19 PDB header:protein transport Chain: D: PDB Molecule:vacuolar protein-sorting-associated protein 25; PDBTitle: integrated structural and functional model of the human escrt-ii2 complex 18 c1gngX_ 11.0 54 PDB header:transferase Chain: X: PDB Molecule:frattide; PDBTitle: glycogen synthase kinase-3 beta (gsk3) complex with frattide2 peptide 19 c2zmeD_ 10.8 19 PDB header:protein transport Chain: D: PDB Molecule:vacuolar protein-sorting-associated protein 25; PDBTitle: integrated structural and functional model of the human escrt-ii2 complex 20 c3nbbC_ 10.7 13 PDB header:oxidoreductase Chain: C: PDB Molecule:peroxisomal primary amine oxidase; PDBTitle: crystal structure of mutant y305f expressed in e. coli in the copper2 amine oxidase from hansenula polymorpha 21 d2e1fa1 not modelled 10.2 29 Fold:SAM domain-like Superfamily:HRDC-like Family:HRDC domain from helicases 22 d2odka1 not modelled 9.6 31 Fold:YefM-like Superfamily:YefM-like Family:YefM-like 23 d1ylxa1 not modelled 9.1 35 Fold:N domain of copper amine oxidase-like Superfamily:GK1464-like Family:GK1464-like 24 d1w2za1 not modelled 8.6 20 Fold:Supersandwich Superfamily:Amine oxidase catalytic domain Family:Amine oxidase catalytic domain 25 c2owyB_ not modelled 8.5 6 PDB header:dna binding protein Chain: B: PDB Molecule:recombination-associated protein rdgc; PDBTitle: the recombination-associated protein rdgc adopts a novel toroidal2 architecture for dna binding 26 d1pprm2 not modelled 8.2 18 Fold:Peridinin-chlorophyll protein Superfamily:Peridinin-chlorophyll protein Family:Peridinin-chlorophyll protein 27 d1q9ja2 not modelled 8.1 16 Fold:CoA-dependent acyltransferases Superfamily:CoA-dependent acyltransferases Family:NRPS condensation domain (amide synthase) 28 c1yveK_ not modelled 7.5 31 PDB header:oxidoreductase Chain: K: PDB Molecule:acetohydroxy acid isomeroreductase; PDBTitle: acetohydroxy acid isomeroreductase complexed with nadph,2 magnesium and inhibitor ipoha (n-hydroxy-n-3 isopropyloxamate) 29 c3jqoV_ not modelled 7.3 27 PDB header:transport protein Chain: V: PDB Molecule:traf protein; PDBTitle: crystal structure of the outer membrane complex of a type iv2 secretion system 30 c3u5cH_ not modelled 7.2 27 PDB header:ribosome Chain: H: PDB Molecule:40s ribosomal protein s7-a; PDBTitle: the structure of the eukaryotic ribosome at 3.0 a resolution 31 c1eakA_ not modelled 7.0 9 PDB header:hydrolase/hydrolase inhibitor Chain: A: PDB Molecule:72 kda type iv collagenase; PDBTitle: catalytic domain of prommp-2 e404q mutant 32 c2jerG_ not modelled 6.8 15 PDB header:hydrolase Chain: G: PDB Molecule:agmatine deiminase; PDBTitle: agmatine deiminase of enterococcus faecalis catalyzing its2 reaction. 33 d2jera1 not modelled 6.7 15 Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase 34 c3higB_ not modelled 6.7 18 PDB header:oxidoreductase Chain: B: PDB Molecule:amiloride-sensitive amine oxidase; PDBTitle: crystal structure of human diamine oxidase in complex with the2 inhibitor berenil 35 d1w6ga1 not modelled 6.5 16 Fold:Supersandwich Superfamily:Amine oxidase catalytic domain Family:Amine oxidase catalytic domain 36 d2ewoa1 not modelled 6.4 15 Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase 37 c2odkD_ not modelled 6.4 31 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:hypothetical protein; PDBTitle: putative prevent-host-death protein from nitrosomonas europaea 38 d1pprm1 not modelled 6.2 8 Fold:Peridinin-chlorophyll protein Superfamily:Peridinin-chlorophyll protein Family:Peridinin-chlorophyll protein 39 c2bj3D_ not modelled 6.2 15 PDB header:transcription Chain: D: PDB Molecule:nickel responsive regulator; PDBTitle: nikr-apo 40 d1uptd_ not modelled 6.0 36 Fold:GRIP domain Superfamily:GRIP domain Family:GRIP domain 41 c3zrkY_ not modelled 6.0 54 PDB header:transferase/peptide Chain: Y: PDB Molecule:proto-oncogene frat1; PDBTitle: identification of 2-(4-pyridyl)thienopyridinones as gsk-3beta2 inhibitors 42 c3mazA_ not modelled 5.8 4 PDB header:signaling protein Chain: A: PDB Molecule:signal-transducing adaptor protein 1; PDBTitle: crystal structure of the human brdg1/stap-1 sh2 domain in complex with2 the ntal ptyr136 peptide 43 d1vkpa_ not modelled 5.7 10 Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase 44 c2owlA_ not modelled 5.7 9 PDB header:recombination Chain: A: PDB Molecule:recombination-associated protein rdgc; PDBTitle: crystal structure of e. coli rdgc 45 d2cmua1 not modelled 5.6 8 Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase 46 c2o01J_ not modelled 5.6 19 PDB header:photosynthesis Chain: J: PDB Molecule:photosystem i reaction center subunit ix; PDBTitle: the structure of a plant photosystem i supercomplex at 3.42 angstrom resolution 47 d2hzaa1 not modelled 5.6 17 Fold:Ribbon-helix-helix Superfamily:Ribbon-helix-helix Family:CopG-like 48 c3e7nB_ not modelled 5.6 50 PDB header:transport protein Chain: B: PDB Molecule:d-ribose high-affinity transport system; PDBTitle: crystal structure of d-ribose high-affinity transport system from2 salmonella typhimurium lt2 49 c3pamB_ not modelled 5.5 38 PDB header:transport protein Chain: B: PDB Molecule:transmembrane protein; PDBTitle: crystal structure of a domain of transmembrane protein of abc-type2 oligopeptide transport system from bartonella henselae str. houston-1 50 d1nexa2 not modelled 5.3 19 Fold:POZ domain Superfamily:POZ domain Family:BTB/POZ domain 51 c2p9rA_ not modelled 5.3 0 PDB header:signaling protein Chain: A: PDB Molecule:alpha-2-macroglobulin; PDBTitle: human alpha2-macroglogulin is composed of multiple domains,2 as predicted by homology with complement component c3 52 c1q5vB_ not modelled 5.3 17 PDB header:transcription Chain: B: PDB Molecule:nickel responsive regulator; PDBTitle: apo-nikr 53 c3zvkG_ not modelled 5.2 24 PDB header:antitoxin/toxin/dna Chain: G: PDB Molecule:antitoxin of toxin-antitoxin system vapb; PDBTitle: crystal structure of vapbc2 from rickettsia felis bound to2 a dna fragment from their promoter 54 d1xkna_ not modelled 5.2 23 Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase 55 c2ca9B_ not modelled 5.1 17 PDB header:transcriptional regulation Chain: B: PDB Molecule:putative nickel-responsive regulator; PDBTitle: apo-nikr from helicobacter pylori in closed trans-2 conformation

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