Secondary structure and disorder prediction

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Sequence		M	G	D	H	M	F	N	R	P	N	R	N	D	V	D	D	G	V	Q	D	I	Q	N	D	V	N	Q	L	A	D	S	L	E	S	V	L	K	S	W	G	S	D	A	K	G	E	A	E	A	A	R	S	K	A	Q	A	L	L	K	E
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																							?		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.
Sequence		T	R	A	R	M	H	G	R	T	R	V	Q	Q	A	A	R	D	A	V	G	C	A	D	S	F	V	R	E	R	P	W	C	S	V	G	T	A	A	A	V	G	I	F	I	G	A	L	L	S	M	R	K	S
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 2vs0 chain B Region: 12 - 83 Aligned: 72 Modelled: 72 Confidence: 88.0% Identity: 14% PDB header:cell invasion Chain: B: PDB Molecule:virulence factor esxa; PDBTitle: structural analysis of homodimeric staphylococcal aureus2 virulence factor esxa Phyre2 PDB 3gvm chain A Region: 12 - 86 Aligned: 75 Modelled: 75 Confidence: 85.8% Identity: 13% PDB header:viral protein Chain: A: PDB Molecule:putative uncharacterized protein sag1039; PDBTitle: structure of the homodimeric wxg-100 family protein from streptococcus2 agalactiae Phyre2 PDB 1wa8 chain B domain 1 Region: 12 - 83 Aligned: 72 Modelled: 72 Confidence: 81.4% Identity: 17% Fold: Ferritin-like Superfamily: EsxAB dimer-like Family: ESAT-6 like Phyre2 PDB 3kdp chain G Region: 84 - 111 Aligned: 26 Modelled: 28 Confidence: 69.7% Identity: 38% PDB header:hydrolase Chain: G: PDB Molecule:na+/k+ atpase gamma subunit transcript variant a; PDBTitle: crystal structure of the sodium-potassium pump Phyre2 PDB 3kdp chain H Region: 84 - 111 Aligned: 26 Modelled: 28 Confidence: 69.7% Identity: 38% PDB header:hydrolase Chain: H: PDB Molecule:na+/k+ atpase gamma subunit transcript variant a; PDBTitle: crystal structure of the sodium-potassium pump Phyre2 PDB 1wa8 chain A domain 1 Region: 12 - 84 Aligned: 73 Modelled: 73 Confidence: 69.6% Identity: 16% Fold: Ferritin-like Superfamily: EsxAB dimer-like Family: ESAT-6 like Phyre2 PDB 1nfo chain A Region: 13 - 75 Aligned: 63 Modelled: 63 Confidence: 63.1% Identity: 13% PDB header:lipid transport Chain: A: PDB Molecule:apolipoprotein e2; PDBTitle: apolipoprotein e2 (apoe2, d154a mutation) Phyre2 PDB 1eq1 chain A Region: 11 - 75 Aligned: 65 Modelled: 65 Confidence: 49.5% Identity: 9% Fold: Apolipophorin-III Superfamily: Apolipophorin-III Family: Apolipophorin-III Phyre2 PDB 2jwa chain A Region: 94 - 112 Aligned: 19 Modelled: 19 Confidence: 35.6% Identity: 21% PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure Phyre2 PDB 2kbb chain A Region: 2 - 103 Aligned: 102 Modelled: 102 Confidence: 32.0% Identity: 15% PDB header:structural protein Chain: A: PDB Molecule:talin-1; PDBTitle: nmr structure of the talin rod domain, 1655-1822 Phyre2 PDB 1gs9 chain A Region: 15 - 86 Aligned: 72 Modelled: 72 Confidence: 30.2% Identity: 6% Fold: Four-helical up-and-down bundle Superfamily: Apolipoprotein Family: Apolipoprotein Phyre2 PDB 3hd7 chain A Region: 41 - 108 Aligned: 68 Modelled: 68 Confidence: 28.6% Identity: 12% PDB header:exocytosis Chain: A: PDB Molecule:vesicle-associated membrane protein 2; PDBTitle: helical extension of the neuronal snare complex into the membrane,2 spacegroup c 1 2 1 Phyre2 PDB 2l5b chain A Region: 91 - 111 Aligned: 21 Modelled: 21 Confidence: 26.5% Identity: 33% PDB header:apoptosis Chain: A: PDB Molecule:activator of apoptosis harakiri; PDBTitle: solution structure of the transmembrane domain of bcl-2 member2 harakiri in micelles Phyre2 PDB 3lf9 chain A Region: 11 - 88 Aligned: 78 Modelled: 78 Confidence: 23.5% Identity: 13% PDB header:immune system Chain: A: PDB Molecule:4e10_d0_1is1a_001_c (t161); PDBTitle: crystal structure of hiv epitope-scaffold 4e10_d0_1is1a_001_c Phyre2 PDB 1v9d chain A Region: 17 - 90 Aligned: 74 Modelled: 74 Confidence: 22.8% Identity: 11% Fold: Formin homology 2 domain (FH2 domain) Superfamily: Formin homology 2 domain (FH2 domain) Family: Formin homology 2 domain (FH2 domain) Phyre2 PDB 1iij chain A Region: 96 - 112 Aligned: 17 Modelled: 17 Confidence: 21.6% Identity: 41% PDB header:signaling protein Chain: A: PDB Molecule:erbb-2 receptor protein-tyrosine kinase; PDBTitle: solution structure of the neu/erbb-2 membrane spanning2 segment Phyre2 PDB 2x43 chain S Region: 16 - 65 Aligned: 50 Modelled: 50 Confidence: 21.2% Identity: 10% PDB header:membrane protein Chain: S: PDB Molecule:sherp; PDBTitle: structural basis of molecular recognition by sherp at membrane2 surfaces Phyre2 PDB 3o3n chain B Region: 4 - 110 Aligned: 87 Modelled: 87 Confidence: 20.7% Identity: 16% PDB header:lyase Chain: B: PDB Molecule:beta-subunit 2-hydroxyacyl-coa dehydratase; PDBTitle: (r)-2-hydroxyisocaproyl-coa dehydratase in complex with its substrate2 (r)-2-hydroxyisocaproyl-coa Phyre2 PDB 2dbi chain A Region: 13 - 91 Aligned: 79 Modelled: 79 Confidence: 20.3% Identity: 6% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ybiu; PDBTitle: crystal structure of a hypothetical protein jw0805 from2 escherichia coli Phyre2 PDB 1f16 chain A Region: 73 - 111 Aligned: 39 Modelled: 39 Confidence: 20.0% Identity: 26% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 1 c2vs0B_ 2 c3gvmA_ 3 d1wa8b1 4 c3kdpG_ 5 c3kdpH_ 6 d1wa8a1 7 c1nfoA_ 8 d1eq1a_ 9 c2jwaA_ 10 c2kbbA_ 11 d1gs9a_ 12 c3hd7A_ 13 c2l5bA_ 14 c3lf9A_ 15 d1v9da_ 16 c1iijA_ 17 c2x43S_ 18 c3o3nB_ 19 c2dbiA_ 20 d1f16a_ 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 57 58 59 60 61 62 63 64 65 66

Detailed template information

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

1 c2vs0B_ 88.0 14 PDB header:cell invasion Chain: B: PDB Molecule:virulence factor esxa; PDBTitle: structural analysis of homodimeric staphylococcal aureus2 virulence factor esxa 2 c3gvmA_ 85.8 13 PDB header:viral protein Chain: A: PDB Molecule:putative uncharacterized protein sag1039; PDBTitle: structure of the homodimeric wxg-100 family protein from streptococcus2 agalactiae 3 d1wa8b1 81.4 17 Fold:Ferritin-like Superfamily:EsxAB dimer-like Family:ESAT-6 like 4 c3kdpG_ 69.7 38 PDB header:hydrolase Chain: G: PDB Molecule:na+/k+ atpase gamma subunit transcript variant a; PDBTitle: crystal structure of the sodium-potassium pump 5 c3kdpH_ 69.7 38 PDB header:hydrolase Chain: H: PDB Molecule:na+/k+ atpase gamma subunit transcript variant a; PDBTitle: crystal structure of the sodium-potassium pump 6 d1wa8a1 69.6 16 Fold:Ferritin-like Superfamily:EsxAB dimer-like Family:ESAT-6 like 7 c1nfoA_ 63.1 13 PDB header:lipid transport Chain: A: PDB Molecule:apolipoprotein e2; PDBTitle: apolipoprotein e2 (apoe2, d154a mutation) 8 d1eq1a_ 49.5 9 Fold:Apolipophorin-III Superfamily:Apolipophorin-III Family:Apolipophorin-III 9 c2jwaA_ 35.6 21 PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure 10 c2kbbA_ 32.0 15 PDB header:structural protein Chain: A: PDB Molecule:talin-1; PDBTitle: nmr structure of the talin rod domain, 1655-1822 11 d1gs9a_ 30.2 6 Fold:Four-helical up-and-down bundle Superfamily:Apolipoprotein Family:Apolipoprotein 12 c3hd7A_ 28.6 12 PDB header:exocytosis Chain: A: PDB Molecule:vesicle-associated membrane protein 2; PDBTitle: helical extension of the neuronal snare complex into the membrane,2 spacegroup c 1 2 1 13 c2l5bA_ 26.5 33 PDB header:apoptosis Chain: A: PDB Molecule:activator of apoptosis harakiri; PDBTitle: solution structure of the transmembrane domain of bcl-2 member2 harakiri in micelles 14 c3lf9A_ 23.5 13 PDB header:immune system Chain: A: PDB Molecule:4e10_d0_1is1a_001_c (t161); PDBTitle: crystal structure of hiv epitope-scaffold 4e10_d0_1is1a_001_c 15 d1v9da_ 22.8 11 Fold:Formin homology 2 domain (FH2 domain) Superfamily:Formin homology 2 domain (FH2 domain) Family:Formin homology 2 domain (FH2 domain) 16 c1iijA_ 21.6 41 PDB header:signaling protein Chain: A: PDB Molecule:erbb-2 receptor protein-tyrosine kinase; PDBTitle: solution structure of the neu/erbb-2 membrane spanning2 segment 17 c2x43S_ 21.2 10 PDB header:membrane protein Chain: S: PDB Molecule:sherp; PDBTitle: structural basis of molecular recognition by sherp at membrane2 surfaces 18 c3o3nB_ 20.7 16 PDB header:lyase Chain: B: PDB Molecule:beta-subunit 2-hydroxyacyl-coa dehydratase; PDBTitle: (r)-2-hydroxyisocaproyl-coa dehydratase in complex with its substrate2 (r)-2-hydroxyisocaproyl-coa 19 c2dbiA_ 20.3 6 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ybiu; PDBTitle: crystal structure of a hypothetical protein jw0805 from2 escherichia coli 20 d1f16a_ 20.0 26 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 21 c1av1B_ not modelled 19.9 16 PDB header:lipid transport Chain: B: PDB Molecule:apolipoprotein a-i; PDBTitle: crystal structure of human apolipoprotein a-i 22 c3o4xF_ not modelled 19.5 9 PDB header:protein binding Chain: F: PDB Molecule:protein diaphanous homolog 1; PDBTitle: crystal structure of complex between amino and carboxy terminal2 fragments of mdia1 23 c3o4xE_ not modelled 19.5 9 PDB header:protein binding Chain: E: PDB Molecule:protein diaphanous homolog 1; PDBTitle: crystal structure of complex between amino and carboxy terminal2 fragments of mdia1 24 c2k14A_ not modelled 18.8 20 PDB header:unknown function Chain: A: PDB Molecule:yuaf protein; PDBTitle: solution structure of the soluble domain of the nfed2 protein yuaf from bacillus subtilis 25 c3lw5K_ not modelled 17.8 31 PDB header:photosynthesis Chain: K: PDB Molecule:photosystem i reaction center subunit x psak; PDBTitle: improved model of plant photosystem i 26 c3r2pA_ not modelled 15.5 14 PDB header:lipid transport Chain: A: PDB Molecule:apolipoprotein a-i; PDBTitle: 2.2 angstrom crystal structure of c terminal truncated human2 apolipoprotein a-i reveals the assembly of hdl by dimerization. 27 c2y44A_ not modelled 15.3 18 PDB header:membrane protein Chain: A: PDB Molecule:glutamic acid/alanine-rich protein; PDBTitle: crystal structure of garp from trypanosoma congolense 28 c2k9yB_ not modelled 15.2 28 PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 29 c2z6eC_ not modelled 14.6 11 PDB header:protein fibril regulator Chain: C: PDB Molecule:disheveled-associated activator of morphogenesis PDBTitle: crystal structure of human daam1 fh2 30 d1nekd_ not modelled 14.4 7 Fold:Heme-binding four-helical bundle Superfamily:Fumarate reductase respiratory complex transmembrane subunits Family:Succinate dehydrogenase/Fumarate reductase transmembrane subunits (SdhC/FrdC and SdhD/FrdD) 31 c2k9yA_ not modelled 13.8 28 PDB header:transferase Chain: A: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 32 d1i6la_ not modelled 13.6 1 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Class I aminoacyl-tRNA synthetases (RS), catalytic domain 33 d2csga1 not modelled 13.3 8 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:YbiU-like 34 c3e0sA_ not modelled 13.0 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an uncharacterized protein from2 chlorobium tepidum 35 c1p58F_ not modelled 12.4 18 PDB header:virus Chain: F: PDB Molecule:envelope protein m; PDBTitle: complex organization of dengue virus membrane proteins as revealed by2 9.5 angstrom cryo-em reconstruction 36 c3peuB_ not modelled 11.5 13 PDB header:hydrolase Chain: B: PDB Molecule:nucleoporin gle1; PDBTitle: s. cerevisiae dbp5 l327v c-terminal domain bound to gle1 h337r and ip6 37 d1vcsa1 not modelled 10.7 15 Fold:STAT-like Superfamily:t-snare proteins Family:t-snare proteins 38 c2j1dG_ not modelled 9.9 11 PDB header:protein binding Chain: G: PDB Molecule:disheveled-associated activator of morphogenesis 1; PDBTitle: crystallization of hdaam1 c-terminal fragment 39 c3sz3A_ not modelled 9.5 16 PDB header:ligase Chain: A: PDB Molecule:tryptophanyl-trna synthetase; PDBTitle: crystal structure of tryptophanyl-trna synthetase from vibrio cholerae2 with an endogenous tryptophan 40 d1lvfa_ not modelled 8.6 15 Fold:STAT-like Superfamily:t-snare proteins Family:t-snare proteins 41 c2kncB_ not modelled 8.5 10 PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 42 c3prhB_ not modelled 8.3 3 PDB header:ligase Chain: B: PDB Molecule:tryptophanyl-trna synthetase; PDBTitle: tryptophanyl-trna synthetase val144pro mutant from b. subtilis 43 d1szia_ not modelled 8.2 17 Fold:Four-helical up-and-down bundle Superfamily:Mannose-6-phosphate receptor binding protein 1 (Tip47), C-terminal domain Family:Mannose-6-phosphate receptor binding protein 1 (Tip47), C-terminal domain 44 d1ef1c_ not modelled 7.7 18 Fold:Non-globular all-alpha subunits of globular proteins Superfamily:Moesin tail domain Family:Moesin tail domain 45 d1ykhb1 not modelled 7.3 13 Fold:Mediator hinge subcomplex-like Superfamily:Mediator hinge subcomplex-like Family:CSE2-like 46 c2pnvA_ not modelled 7.2 19 PDB header:membrane protein Chain: A: PDB Molecule:small conductance calcium-activated potassium PDBTitle: crystal structure of the leucine zipper domain of small-2 conductance ca2+-activated k+ (skca) channel from rattus3 norvegicus 47 c2k1lA_ not modelled 7.2 17 PDB header:signaling protein Chain: A: PDB Molecule:ephrin type-a receptor 1; PDBTitle: nmr structures of dimeric transmembrane domain of the2 receptor tyrosine kinase epha1 in lipid bicelles at ph 6.3 48 c2k1lB_ not modelled 7.2 17 PDB header:signaling protein Chain: B: PDB Molecule:ephrin type-a receptor 1; PDBTitle: nmr structures of dimeric transmembrane domain of the2 receptor tyrosine kinase epha1 in lipid bicelles at ph 6.3 49 c2k1kA_ not modelled 7.2 17 PDB header:signaling protein Chain: A: PDB Molecule:ephrin type-a receptor 1; PDBTitle: nmr structures of dimeric transmembrane domain of the2 receptor tyrosine kinase epha1 in lipid bicelles at ph 4.3 50 c2k1kB_ not modelled 7.2 17 PDB header:signaling protein Chain: B: PDB Molecule:ephrin type-a receptor 1; PDBTitle: nmr structures of dimeric transmembrane domain of the2 receptor tyrosine kinase epha1 in lipid bicelles at ph 4.3 51 c3onjA_ not modelled 6.9 8 PDB header:protein transport Chain: A: PDB Molecule:t-snare vti1; PDBTitle: crystal structure of yeast vti1p_habc domain 52 c2f42A_ not modelled 6.2 31 PDB header:chaperone Chain: A: PDB Molecule:stip1 homology and u-box containing protein 1; PDBTitle: dimerization and u-box domains of zebrafish c-terminal of hsp702 interacting protein 53 c1nohB_ not modelled 6.2 11 PDB header:viral protein Chain: B: PDB Molecule:head morphogenesis protein; PDBTitle: the structure of bacteriophage phi29 scaffolding protein2 gp7 after prohead assembly 54 d1ryka_ not modelled 5.6 6 Fold:SAM domain-like Superfamily:Hypothetical protein YjbJ Family:Hypothetical protein YjbJ 55 d1q90l_ not modelled 5.5 40 Fold:Single transmembrane helix Superfamily:PetL subunit of the cytochrome b6f complex Family:PetL subunit of the cytochrome b6f complex 56 c1q90L_ not modelled 5.5 40 PDB header:photosynthesis Chain: L: PDB Molecule:cytochrome b6f complex subunit petl; PDBTitle: structure of the cytochrome b6f (plastohydroquinone : plastocyanin2 oxidoreductase) from chlamydomonas reinhardtii 57 c3zrwB_ not modelled 5.5 7 PDB header:signaling protein Chain: B: PDB Molecule:af1503 protein, osmolarity sensor protein envz; PDBTitle: the structure of the dimeric hamp-dhp fusion a291v mutant 58 c3n9iA_ not modelled 5.4 7 PDB header:ligase Chain: A: PDB Molecule:tryptophanyl-trna synthetase; PDBTitle: crystal structure of tryptophanyl-trna synthetase from yersinia pestis2 co92 59 d2ooca1 not modelled 5.3 11 Fold:Four-helical up-and-down bundle Superfamily:Histidine-containing phosphotransfer domain, HPT domain Family:SphA-like 60 c1urqA_ not modelled 5.2 18 PDB header:transport protein Chain: A: PDB Molecule:m-tomosyn isoform; PDBTitle: crystal structure of neuronal q-snares in complex with2 r-snare motif of tomosyn 61 c2wukD_ not modelled 5.1 6 PDB header:cell cycle Chain: D: PDB Molecule:septum site-determining protein diviva; PDBTitle: diviva n-terminal domain, f17a mutant 62 d1slqa_ not modelled 5.1 15 Fold:VP4 membrane interaction domain Superfamily:VP4 membrane interaction domain Family:VP4 membrane interaction domain 63 c2kbvA_ not modelled 5.1 20 PDB header:membrane protein Chain: A: PDB Molecule:sodium/hydrogen exchanger 1; PDBTitle: structural and functional analysis of tm xi of the nhe12 isoform of the na+/h+ exchanger 64 c3a0hX_ not modelled 5.1 56 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of i-substituted photosystem ii complex 65 c3a0bX_ not modelled 5.1 56 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii complex 66 c3a0bx_ not modelled 5.1 56 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii complex

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