Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	R	N	L	L	S	S	A	I	I	V	A	I	M	S	L	G	L	T	G	C	D	D	K	K	A	E	T	E	T	L	P	P	A	N	S	Q	P	A	A	P	A	P	E	A	K	P	T	E	A	P	V	A	K	A	E	A	K	P
Secondary structure
SS confidence
Disorder		?	?	?																?	?		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		E	T	P	A	Q	P	V	V	D	E	Q	A	V	F	D	E	K	M	D	V	Y	I	K	C	Y	N	K	L	Q	I	P	V	Q	R	S	L	A	R	Y	A	D	W	L	K	D	F	K	Q	G	P	T	G	E	E	R	T	V	Y	G	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?																		?	?															?	?	?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		Y	G	I	S	E	S	N	L	A	E	C	E	K	G	V	K	S	A	V	A	L	T	P	A	L	Q	P	I	D	G	V	A	V	S	Y	I	D	A	A	V	A	L	G	N	T	I	N	E	M	D	K	Y	Y	T	Q	E	N	Y	K	D
Secondary structure
SS confidence
Disorder																			?	?	?	?	?	?	?	?																														?		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		D	A	F	A	K	G	K	T	L	H	Q	T	F	L	K	N	L	E	A	F	E	P	V	A	E	S	Y	H	A	A	I	Q	E	I	N	D	K	R	Q	L	A	E	L	K	N	I	E	E	R	E	G	K	T	F	H	Y	Y	S	L	A
Secondary structure
SS confidence
Disorder		?	?																																													?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		V	M	I	S	A	K	Q	I	N	N	L	I	S	Q	D	K	F	D	A	E	A	A	M	K	K	V	S	E	L	E	T	L	V	A	Q	A	K	E	A	D	K	G	G	M	N	F	S	F	I	N	S	A	G	Q	Y	Q	L	E	A	K
Secondary structure
SS confidence
Disorder															?		?	?																						?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.
Sequence		K	Y	V	R	R	I	R	D	K	V	P	Y	S	D	W	D	K	E	Q	L	Q	D	A	N	S	S	W	M	V	E	D	S	F	P	R	A	L	R	E	Y	N	E	M	V	D	D	Y	N	S	L	R
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 3iee chain A Region: 71 - 348 Aligned: 248 Modelled: 258 Confidence: 99.3% Identity: 10% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative exported protein; PDBTitle: crystal structure of hypothetical protein bf3319 from bacteroides2 fragilis (yp_212931.1) from bacteroides fragilis nctc 9343 at 1.70 a3 resolution Phyre2 PDB 3rh3 chain A Region: 73 - 322 Aligned: 224 Modelled: 228 Confidence: 99.1% Identity: 13% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized duf3829-like protein; PDBTitle: crystal structure of an uncharacterized duf3829-like protein (bt_1908)2 from bacteroides thetaiotaomicron vpi-5482 at 2.10 a resolution Phyre2 PDB 1vlt chain A Region: 143 - 207 Aligned: 65 Modelled: 65 Confidence: 31.5% Identity: 9% Fold: Four-helical up-and-down bundle Superfamily: Aspartate receptor, ligand-binding domain Family: Aspartate receptor, ligand-binding domain Phyre2 PDB 1s94 chain A Region: 259 - 351 Aligned: 90 Modelled: 93 Confidence: 21.1% Identity: 16% Fold: STAT-like Superfamily: t-snare proteins Family: t-snare proteins Phyre2 PDB 1s94 chain A Region: 259 - 351 Aligned: 90 Modelled: 93 Confidence: 21.1% Identity: 16% PDB header:endocytosis/exocytosis Chain: A: PDB Molecule:s-syntaxin; PDBTitle: crystal structure of the habc domain of neuronal syntaxin from the2 squid loligo pealei Phyre2 PDB 2kdt chain A Region: 78 - 86 Aligned: 9 Modelled: 9 Confidence: 15.8% Identity: 33% PDB header:protein transport Chain: A: PDB Molecule:neuroendocrine convertase 1; PDBTitle: pc1/3 dcsg sorting domain structure in dpc Phyre2 PDB 3ls1 chain A Region: 58 - 200 Aligned: 119 Modelled: 143 Confidence: 15.2% Identity: 13% PDB header:photosynthesis Chain: A: PDB Molecule:sll1638 protein; PDBTitle: crystal structure of cyanobacterial psbq from synechocystis2 sp. pcc 6803 complexed with zn2+ Phyre2 PDB 3c4m chain A Region: 11 - 149 Aligned: 132 Modelled: 139 Confidence: 13.7% Identity: 15% PDB header:membrane protein Chain: A: PDB Molecule:fusion protein of maltose-binding periplasmic protein and PDBTitle: structure of human parathyroid hormone in complex with the2 extracellular domain of its g-protein-coupled receptor (pth1r) Phyre2 PDB 2kmf chain A Region: 262 - 349 Aligned: 70 Modelled: 73 Confidence: 12.8% Identity: 17% PDB header:photosynthesis Chain: A: PDB Molecule:photosystem ii 11 kda protein; PDBTitle: solution structure of psb27 from cyanobacterial photosystem2 ii Phyre2 PDB 1ykh chain B domain 1 Region: 83 - 200 Aligned: 105 Modelled: 118 Confidence: 12.2% Identity: 18% Fold: Mediator hinge subcomplex-like Superfamily: Mediator hinge subcomplex-like Family: CSE2-like Phyre2 PDB 1pq1 chain B Region: 156 - 181 Aligned: 26 Modelled: 26 Confidence: 12.2% Identity: 27% PDB header:apoptosis Chain: B: PDB Molecule:bcl2-like protein 11; PDBTitle: crystal structure of bcl-xl/bim Phyre2 PDB 1pgy chain A Region: 11 - 20 Aligned: 10 Modelled: 10 Confidence: 12.0% Identity: 60% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 3fyq chain A Region: 127 - 171 Aligned: 45 Modelled: 45 Confidence: 11.7% Identity: 13% PDB header:cell adhesion Chain: A: PDB Molecule:cg6831-pa (talin); PDBTitle: structure of drosophila melanogaster talin ibs2 domain2 (residues 1981-2168) Phyre2 PDB 2lig chain A Region: 143 - 208 Aligned: 66 Modelled: 66 Confidence: 11.3% Identity: 9% Fold: Four-helical up-and-down bundle Superfamily: Aspartate receptor, ligand-binding domain Family: Aspartate receptor, ligand-binding domain Phyre2 PDB 1ez3 chain A Region: 259 - 351 Aligned: 93 Modelled: 93 Confidence: 11.3% Identity: 10% Fold: STAT-like Superfamily: t-snare proteins Family: t-snare proteins Phyre2 PDB 1sj8 chain A domain 2 Region: 128 - 162 Aligned: 35 Modelled: 35 Confidence: 10.0% Identity: 17% Fold: I/LWEQ domain Superfamily: I/LWEQ domain Family: I/LWEQ domain Phyre2 PDB 3d7v chain B Region: 158 - 175 Aligned: 18 Modelled: 18 Confidence: 9.1% Identity: 22% PDB header:apoptosis Chain: B: PDB Molecule:bcl-2-like protein 11; PDBTitle: crystal structure of mcl-1 in complex with an mcl-12 selective bh3 ligand Phyre2 PDB 2j1d chain G Region: 256 - 349 Aligned: 94 Modelled: 94 Confidence: 8.7% Identity: 9% PDB header:protein binding Chain: G: PDB Molecule:disheveled-associated activator of morphogenesis 1; PDBTitle: crystallization of hdaam1 c-terminal fragment Phyre2 PDB 2jdi chain A domain 1 Region: 231 - 322 Aligned: 92 Modelled: 92 Confidence: 8.6% Identity: 13% Fold: Left-handed superhelix Superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase Family: C-terminal domain of alpha and beta subunits of F1 ATP synthase Phyre2 PDB 2nl9 chain B Region: 158 - 175 Aligned: 18 Modelled: 18 Confidence: 8.5% Identity: 28% PDB header:apoptosis Chain: B: PDB Molecule:bcl-2-like protein 11; PDBTitle: crystal structure of the mcl-1:bim bh3 complex Phyre2 1 c3ieeA_ 2 c3rh3A_ 3 d1vlta_ 4 d1s94a_ 5 c1s94A_ 6 c2kdtA_ 7 c3ls1A_ 8 c3c4mA_ 9 c2kmfA_ 10 d1ykhb1 11 c1pq1B_ 12 d1pgya_ 13 c3fyqA_ 14 d2liga_ 15 d1ez3a_ 16 d1sj8a2 17 c3d7vB_ 18 c2j1dG_ 19 d2jdia1 20 c2nl9B_ 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 56

Detailed template information

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

1 c3ieeA_ 99.3 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative exported protein; PDBTitle: crystal structure of hypothetical protein bf3319 from bacteroides2 fragilis (yp_212931.1) from bacteroides fragilis nctc 9343 at 1.70 a3 resolution 2 c3rh3A_ 99.1 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized duf3829-like protein; PDBTitle: crystal structure of an uncharacterized duf3829-like protein (bt_1908)2 from bacteroides thetaiotaomicron vpi-5482 at 2.10 a resolution 3 d1vlta_ 31.5 9 Fold:Four-helical up-and-down bundle Superfamily:Aspartate receptor, ligand-binding domain Family:Aspartate receptor, ligand-binding domain 4 d1s94a_ 21.1 16 Fold:STAT-like Superfamily:t-snare proteins Family:t-snare proteins 5 c1s94A_ 21.1 16 PDB header:endocytosis/exocytosis Chain: A: PDB Molecule:s-syntaxin; PDBTitle: crystal structure of the habc domain of neuronal syntaxin from the2 squid loligo pealei 6 c2kdtA_ 15.8 33 PDB header:protein transport Chain: A: PDB Molecule:neuroendocrine convertase 1; PDBTitle: pc1/3 dcsg sorting domain structure in dpc 7 c3ls1A_ 15.2 13 PDB header:photosynthesis Chain: A: PDB Molecule:sll1638 protein; PDBTitle: crystal structure of cyanobacterial psbq from synechocystis2 sp. pcc 6803 complexed with zn2+ 8 c3c4mA_ 13.7 15 PDB header:membrane protein Chain: A: PDB Molecule:fusion protein of maltose-binding periplasmic protein and PDBTitle: structure of human parathyroid hormone in complex with the2 extracellular domain of its g-protein-coupled receptor (pth1r) 9 c2kmfA_ 12.8 17 PDB header:photosynthesis Chain: A: PDB Molecule:photosystem ii 11 kda protein; PDBTitle: solution structure of psb27 from cyanobacterial photosystem2 ii 10 d1ykhb1 12.2 18 Fold:Mediator hinge subcomplex-like Superfamily:Mediator hinge subcomplex-like Family:CSE2-like 11 c1pq1B_ 12.2 27 PDB header:apoptosis Chain: B: PDB Molecule:bcl2-like protein 11; PDBTitle: crystal structure of bcl-xl/bim 12 d1pgya_ 12.0 60 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 13 c3fyqA_ 11.7 13 PDB header:cell adhesion Chain: A: PDB Molecule:cg6831-pa (talin); PDBTitle: structure of drosophila melanogaster talin ibs2 domain2 (residues 1981-2168) 14 d2liga_ 11.3 9 Fold:Four-helical up-and-down bundle Superfamily:Aspartate receptor, ligand-binding domain Family:Aspartate receptor, ligand-binding domain 15 d1ez3a_ 11.3 10 Fold:STAT-like Superfamily:t-snare proteins Family:t-snare proteins 16 d1sj8a2 10.0 17 Fold:I/LWEQ domain Superfamily:I/LWEQ domain Family:I/LWEQ domain 17 c3d7vB_ 9.1 22 PDB header:apoptosis Chain: B: PDB Molecule:bcl-2-like protein 11; PDBTitle: crystal structure of mcl-1 in complex with an mcl-12 selective bh3 ligand 18 c2j1dG_ 8.7 9 PDB header:protein binding Chain: G: PDB Molecule:disheveled-associated activator of morphogenesis 1; PDBTitle: crystallization of hdaam1 c-terminal fragment 19 d2jdia1 8.6 13 Fold:Left-handed superhelix Superfamily:C-terminal domain of alpha and beta subunits of F1 ATP synthase Family:C-terminal domain of alpha and beta subunits of F1 ATP synthase 20 c2nl9B_ 8.5 28 PDB header:apoptosis Chain: B: PDB Molecule:bcl-2-like protein 11; PDBTitle: crystal structure of the mcl-1:bim bh3 complex 21 c3gvmA_ not modelled 8.0 12 PDB header:viral protein Chain: A: PDB Molecule:putative uncharacterized protein sag1039; PDBTitle: structure of the homodimeric wxg-100 family protein from streptococcus2 agalactiae 22 d1wa8b1 not modelled 7.9 10 Fold:Ferritin-like Superfamily:EsxAB dimer-like Family:ESAT-6 like 23 c3kj1B_ not modelled 7.9 38 PDB header:apoptosis Chain: B: PDB Molecule:bcl-2-like protein 11; PDBTitle: mcl-1 in complex with bim bh3 mutant i2da 24 c2e76D_ not modelled 7.8 14 PDB header:photosynthesis Chain: D: PDB Molecule:cytochrome b6-f complex iron-sulfur subunit; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus 25 d1tuba2 not modelled 7.7 22 Fold:Bacillus chorismate mutase-like Superfamily:Tubulin C-terminal domain-like Family:Tubulin, C-terminal domain 26 c2d4uA_ not modelled 7.4 12 PDB header:signaling protein Chain: A: PDB Molecule:methyl-accepting chemotaxis protein i; PDBTitle: crystal structure of the ligand binding domain of the bacterial serine2 chemoreceptor tsr 27 c2z6eC_ not modelled 6.9 8 PDB header:protein fibril regulator Chain: C: PDB Molecule:disheveled-associated activator of morphogenesis PDBTitle: crystal structure of human daam1 fh2 28 d1nm8a1 not modelled 6.9 20 Fold:CoA-dependent acyltransferases Superfamily:CoA-dependent acyltransferases Family:Choline/Carnitine O-acyltransferase 29 d1hx1b_ not modelled 6.8 16 Fold:Spectrin repeat-like Superfamily:BAG domain Family:BAG domain 30 c3tekA_ not modelled 6.8 23 PDB header:dna binding protein Chain: A: PDB Molecule:thermodbp-single stranded dna binding protein; PDBTitle: thermodbp: a non-canonical single-stranded dna binding protein with a2 novel structure and mechanism 31 d1ndba1 not modelled 6.6 20 Fold:CoA-dependent acyltransferases Superfamily:CoA-dependent acyltransferases Family:Choline/Carnitine O-acyltransferase 32 c2b8kD_ not modelled 6.6 17 PDB header:transferase Chain: D: PDB Molecule:dna-directed rna polymerase ii 32 kda PDBTitle: 12-subunit rna polymerase ii 33 c2dkdA_ not modelled 6.5 22 PDB header:isomerase Chain: A: PDB Molecule:phosphoacetylglucosamine mutase; PDBTitle: crystal structure of n-acetylglucosamine-phosphate mutase,2 a member of the alpha-d-phosphohexomutase superfamily, in3 the product complex 34 d1v54e_ not modelled 6.5 20 Fold:alpha-alpha superhelix Superfamily:Cytochrome c oxidase subunit E Family:Cytochrome c oxidase subunit E 35 c3kz0C_ not modelled 6.4 28 PDB header:apoptosis Chain: C: PDB Molecule:mcl-1 specific peptide mb7; PDBTitle: mcl-1 complex with mcl-1-specific selected peptide 36 c3kz0D_ not modelled 6.4 28 PDB header:apoptosis Chain: D: PDB Molecule:mcl-1 specific peptide mb7; PDBTitle: mcl-1 complex with mcl-1-specific selected peptide 37 c2vs0B_ not modelled 6.4 16 PDB header:cell invasion Chain: B: PDB Molecule:virulence factor esxa; PDBTitle: structural analysis of homodimeric staphylococcal aureus2 virulence factor esxa 38 c2y69R_ not modelled 6.3 20 PDB header:electron transport Chain: R: PDB Molecule:cytochrome c oxidase subunit 5a; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen 39 d2f43a1 not modelled 6.1 12 Fold:Left-handed superhelix Superfamily:C-terminal domain of alpha and beta subunits of F1 ATP synthase Family:C-terminal domain of alpha and beta subunits of F1 ATP synthase 40 c2k7wB_ not modelled 6.1 29 PDB header:apoptosis Chain: B: PDB Molecule:bcl-2-like protein 11; PDBTitle: bax activation is initiated at a novel interaction site 41 c3s90B_ not modelled 6.1 9 PDB header:cell adhesion Chain: B: PDB Molecule:vinculin; PDBTitle: human vinculin head domain vh1 (residues 1-252) in complex with murine2 talin (vbs33; residues 1512-1546) 42 c3s90A_ not modelled 6.1 9 PDB header:cell adhesion Chain: A: PDB Molecule:vinculin; PDBTitle: human vinculin head domain vh1 (residues 1-252) in complex with murine2 talin (vbs33; residues 1512-1546) 43 c2qr4B_ not modelled 6.0 11 PDB header:hydrolase Chain: B: PDB Molecule:peptidase m3b, oligoendopeptidase f; PDBTitle: crystal structure of oligoendopeptidase-f from enterococcus faecium 44 d1skyb1 not modelled 6.0 12 Fold:Left-handed superhelix Superfamily:C-terminal domain of alpha and beta subunits of F1 ATP synthase Family:C-terminal domain of alpha and beta subunits of F1 ATP synthase 45 c2jofA_ not modelled 5.9 50 PDB header:de novo protein Chain: A: PDB Molecule:trp-cage; PDBTitle: the trp-cage: optimizing the stability of a globular2 miniprotein 46 c1jrjA_ not modelled 5.8 7 PDB header:hormone/growth factor Chain: A: PDB Molecule:exendin-4; PDBTitle: solution structure of exendin-4 in 30-vol% trifluoroethanol 47 c2npuA_ not modelled 5.8 17 PDB header:transferase Chain: A: PDB Molecule:fkbp12-rapamycin complex-associated protein; PDBTitle: the solution structure of the rapamycin-binding domain of2 mtor (frb) 48 d1tubb2 not modelled 5.8 22 Fold:Bacillus chorismate mutase-like Superfamily:Tubulin C-terminal domain-like Family:Tubulin, C-terminal domain 49 d1u84a_ not modelled 5.7 29 Fold:YugE-like Superfamily:YugE-like Family:YugE-like 50 d1fioa_ not modelled 5.6 10 Fold:STAT-like Superfamily:t-snare proteins Family:t-snare proteins 51 d1p42a1 not modelled 5.6 16 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase LpxC 52 d1fx0a1 not modelled 5.5 10 Fold:Left-handed superhelix Superfamily:C-terminal domain of alpha and beta subunits of F1 ATP synthase Family:C-terminal domain of alpha and beta subunits of F1 ATP synthase 53 c2l81A_ not modelled 5.5 9 PDB header:cell adhesion Chain: A: PDB Molecule:enhancer of filamentation 1; PDBTitle: solution nmr structure of the serine-rich domain of hef1 (enhancer of2 filamentation 1) from homo sapiens, northeast structural genomics3 consortium target hr5554a 54 c3mtuE_ not modelled 5.5 23 PDB header:contractile protein Chain: E: PDB Molecule:head morphogenesis protein, tropomyosin alpha-1 chain; PDBTitle: structure of the tropomyosin overlap complex from chicken smooth2 muscle 55 c3tj5A_ not modelled 5.5 10 PDB header:protein binding/toxin Chain: A: PDB Molecule:vinculin; PDBTitle: human vinculin head domain (vh1, residues 1-258) in complex with the2 vinculin binding site of the surface cell antigen 4 (sca4-vbs-n;3 residues 412-434) from rickettsia rickettsii 56 c1y9jA_ not modelled 5.3 23 PDB header:protein transport Chain: A: PDB Molecule:sec1 family domain containing protein 1; PDBTitle: solution structure of the rat sly1 n-terminal domain

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