Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	S	T	V	A	L	F	W	A	L	C	V	V	C	I	V	N	M	A	R	Y	F	S	S	L	R	A	L	L	V	V	L	R	N	C	D	P	L	L	Y	Q	Y	V	D	G	G	G	F	F	T	S	H	G	Q	P	N	K	Q	V
Secondary structure
SS confidence
Disorder		?	?	?																																																	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.
Sequence		R	L	V	W	Y	I	Y	A	Q	R	Y	R	D	H	H	D	D	E	F	I	R	R	C	E	R	V	R	R	Q	F	I	L	T	S	A	L	C	G	L	V	V	V	S	L	I	A	L	M	I	W	H
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 1u58 chain A domain 2 Region: 43 - 87 Aligned: 41 Modelled: 45 Confidence: 31.8% Identity: 27% Fold: MHC antigen-recognition domain Superfamily: MHC antigen-recognition domain Family: MHC antigen-recognition domain Phyre2 PDB 2k21 chain A Region: 62 - 78 Aligned: 17 Modelled: 17 Confidence: 26.4% Identity: 18% PDB header:membrane protein Chain: A: PDB Molecule:potassium voltage-gated channel subfamily e PDBTitle: nmr structure of human kcne1 in lmpg micelles at ph 6.0 and2 40 degree c Phyre2 PDB 2knc chain A Region: 91 - 110 Aligned: 20 Modelled: 20 Confidence: 25.2% Identity: 30% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 1tz5 chain A Region: 18 - 30 Aligned: 13 Modelled: 13 Confidence: 21.2% Identity: 54% PDB header:hormone/growth factor Chain: A: PDB Molecule:chimera of pancreatic hormone and neuropeptide y; PDBTitle: [pnpy19-23]-hpp bound to dpc micelles Phyre2 PDB 2bf9 chain A Region: 18 - 30 Aligned: 13 Modelled: 13 Confidence: 19.3% Identity: 23% PDB header:hormone Chain: A: PDB Molecule:pancreatic hormone; PDBTitle: anisotropic refinement of avian (turkey) pancreatic2 polypeptide at 0.99 angstroms resolution. Phyre2 PDB 1qx8 chain A Region: 15 - 25 Aligned: 11 Modelled: 11 Confidence: 18.9% Identity: 45% Fold: ROP-like Superfamily: ROP protein Family: ROP protein Phyre2 PDB 1rh5 chain B Region: 78 - 104 Aligned: 27 Modelled: 27 Confidence: 18.0% Identity: 33% Fold: Single transmembrane helix Superfamily: Preprotein translocase SecE subunit Family: Preprotein translocase SecE subunit Phyre2 PDB 1f4n chain A Region: 15 - 25 Aligned: 11 Modelled: 11 Confidence: 17.6% Identity: 55% Fold: ROP-like Superfamily: ROP protein Family: ROP protein Phyre2 PDB 1gto chain A Region: 15 - 25 Aligned: 11 Modelled: 11 Confidence: 17.3% Identity: 45% Fold: ROP-like Superfamily: ROP protein Family: ROP protein Phyre2 PDB 2ijk chain A domain 1 Region: 15 - 25 Aligned: 11 Modelled: 11 Confidence: 17.1% Identity: 45% Fold: ROP-like Superfamily: ROP protein Family: ROP protein Phyre2 PDB 1nkd chain A Region: 15 - 30 Aligned: 16 Modelled: 16 Confidence: 16.7% Identity: 38% Fold: ROP-like Superfamily: ROP protein Family: ROP protein Phyre2 PDB 2akz chain A domain 2 Region: 42 - 63 Aligned: 22 Modelled: 22 Confidence: 16.5% Identity: 23% Fold: Enolase N-terminal domain-like Superfamily: Enolase N-terminal domain-like Family: Enolase N-terminal domain-like Phyre2 PDB 2dez chain A Region: 18 - 30 Aligned: 13 Modelled: 13 Confidence: 15.6% Identity: 46% PDB header:neuropeptide Chain: A: PDB Molecule:peptide yy; PDBTitle: structure of human pyy Phyre2 PDB 2rrh chain A Region: 74 - 99 Aligned: 26 Modelled: 26 Confidence: 14.9% Identity: 27% PDB header:hormone Chain: A: PDB Molecule:vip peptides; PDBTitle: nmr structure of vasoactive intestinal peptide in methanol Phyre2 PDB 1f4n chain B Region: 15 - 25 Aligned: 11 Modelled: 11 Confidence: 14.3% Identity: 55% Fold: ROP-like Superfamily: ROP protein Family: ROP protein Phyre2 PDB 1ron chain A Region: 18 - 30 Aligned: 13 Modelled: 13 Confidence: 14.0% Identity: 54% PDB header:neuropeptide Chain: A: PDB Molecule:neuropeptide y; PDBTitle: nmr solution structure of human neuropeptide y Phyre2 PDB 2d2p chain A Region: 74 - 99 Aligned: 26 Modelled: 26 Confidence: 13.8% Identity: 27% PDB header:hormone/growth factor Chain: A: PDB Molecule:pituitary adenylate cyclase activating PDBTitle: the solution structure of micelle-bound peptide Phyre2 PDB 2al1 chain A domain 2 Region: 42 - 63 Aligned: 22 Modelled: 22 Confidence: 13.7% Identity: 27% Fold: Enolase N-terminal domain-like Superfamily: Enolase N-terminal domain-like Family: Enolase N-terminal domain-like Phyre2 PDB 2k1a chain A Region: 91 - 110 Aligned: 20 Modelled: 20 Confidence: 13.6% Identity: 30% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment Phyre2 PDB 1pdz chain A domain 2 Region: 42 - 63 Aligned: 22 Modelled: 22 Confidence: 12.5% Identity: 32% Fold: Enolase N-terminal domain-like Superfamily: Enolase N-terminal domain-like Family: Enolase N-terminal domain-like Phyre2 1 d1u58a2 2 c2k21A_ 3 c2kncA_ 4 c1tz5A_ 5 c2bf9A_ 6 d1qx8a_ 7 d1rh5b_ 8 d1f4na_ 9 d1gtoa_ 10 d2ijka1 11 d1nkda_ 12 d2akza2 13 c2dezA_ 14 c2rrhA_ 15 d1f4nb_ 16 c1ronA_ 17 c2d2pA_ 18 d2al1a2 19 c2k1aA_ 20 d1pdza2 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39

Detailed template information

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

1 d1u58a2 31.8 27 Fold:MHC antigen-recognition domain Superfamily:MHC antigen-recognition domain Family:MHC antigen-recognition domain 2 c2k21A_ 26.4 18 PDB header:membrane protein Chain: A: PDB Molecule:potassium voltage-gated channel subfamily e PDBTitle: nmr structure of human kcne1 in lmpg micelles at ph 6.0 and2 40 degree c 3 c2kncA_ 25.2 30 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 4 c1tz5A_ 21.2 54 PDB header:hormone/growth factor Chain: A: PDB Molecule:chimera of pancreatic hormone and neuropeptide y; PDBTitle: [pnpy19-23]-hpp bound to dpc micelles 5 c2bf9A_ 19.3 23 PDB header:hormone Chain: A: PDB Molecule:pancreatic hormone; PDBTitle: anisotropic refinement of avian (turkey) pancreatic2 polypeptide at 0.99 angstroms resolution. 6 d1qx8a_ 18.9 45 Fold:ROP-like Superfamily:ROP protein Family:ROP protein 7 d1rh5b_ 18.0 33 Fold:Single transmembrane helix Superfamily:Preprotein translocase SecE subunit Family:Preprotein translocase SecE subunit 8 d1f4na_ 17.6 55 Fold:ROP-like Superfamily:ROP protein Family:ROP protein 9 d1gtoa_ 17.3 45 Fold:ROP-like Superfamily:ROP protein Family:ROP protein 10 d2ijka1 17.1 45 Fold:ROP-like Superfamily:ROP protein Family:ROP protein 11 d1nkda_ 16.7 38 Fold:ROP-like Superfamily:ROP protein Family:ROP protein 12 d2akza2 16.5 23 Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like 13 c2dezA_ 15.6 46 PDB header:neuropeptide Chain: A: PDB Molecule:peptide yy; PDBTitle: structure of human pyy 14 c2rrhA_ 14.9 27 PDB header:hormone Chain: A: PDB Molecule:vip peptides; PDBTitle: nmr structure of vasoactive intestinal peptide in methanol 15 d1f4nb_ 14.3 55 Fold:ROP-like Superfamily:ROP protein Family:ROP protein 16 c1ronA_ 14.0 54 PDB header:neuropeptide Chain: A: PDB Molecule:neuropeptide y; PDBTitle: nmr solution structure of human neuropeptide y 17 c2d2pA_ 13.8 27 PDB header:hormone/growth factor Chain: A: PDB Molecule:pituitary adenylate cyclase activating PDBTitle: the solution structure of micelle-bound peptide 18 d2al1a2 13.7 27 Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like 19 c2k1aA_ 13.6 30 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment 20 d1pdza2 12.5 32 Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like 21 d2fyma2 not modelled 11.3 18 Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like 22 c2l9uA_ not modelled 10.5 31 PDB header:membrane protein Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-3; PDBTitle: spatial structure of dimeric erbb3 transmembrane domain 23 c2zklA_ not modelled 9.4 22 PDB header:isomerase Chain: A: PDB Molecule:capsular polysaccharide synthesis enzyme cap5f; PDBTitle: crystal structure of capsular polysaccharide assembling protein capf2 from staphylococcus aureus 24 d1kf6d_ not modelled 8.9 21 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) 25 d1wira_ not modelled 8.5 18 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:variant C2H2 finger 26 c1yo7A_ not modelled 8.1 45 PDB header:replication regulator Chain: A: PDB Molecule:regulatory protein rop; PDBTitle: re-engineering topology of the homodimeric rop protein into2 a single-chain 4-helix bundle 27 d1r8ha_ not modelled 7.3 14 Fold:Ferredoxin-like Superfamily:Viral DNA-binding domain Family:Viral DNA-binding domain 28 c2eg9B_ not modelled 6.9 45 PDB header:hydrolase Chain: B: PDB Molecule:adp-ribosyl cyclase 1; PDBTitle: crystal structure of the truncated extracellular domain of2 mouse cd38 29 d1bboa2 not modelled 6.8 25 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 30 d1q15a2 not modelled 6.2 11 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Class II glutamine amidotransferases 31 d2i9wa2 not modelled 6.1 100 Fold:Sec-C motif Superfamily:Sec-C motif Family:Sec-C motif 32 d1vr3a1 not modelled 5.8 26 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Acireductone dioxygenase 33 c2zkrp_ not modelled 5.6 33 PDB header:ribosomal protein/rna Chain: P: PDB Molecule:rna expansion segment es31 part i; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 34 d4znfa_ not modelled 5.4 25 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 35 c3znfA_ not modelled 5.4 25 PDB header:zinc finger dna binding domain Chain: A: PDB Molecule:zinc finger; PDBTitle: high-resolution three-dimensional structure of a single2 zinc finger from a human enhancer binding protein in3 solution 36 c4znfA_ not modelled 5.4 25 PDB header:zinc finger dna binding domain Chain: A: PDB Molecule:zinc finger; PDBTitle: high-resolution three-dimensional structure of a single2 zinc finger from a human enhancer binding protein in3 solution 37 d1fftb2 not modelled 5.4 19 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 38 d1vfsa1 not modelled 5.2 27 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like Superfamily:Alanine racemase C-terminal domain-like Family:Alanine racemase 39 c1hymB_ not modelled 5.2 83 PDB header:hydrolase (serine proteinase) Chain: B: PDB Molecule:hydrolyzed cucurbita maxima trypsin inhibitor v; PDBTitle: hydrolyzed trypsin inhibitor (cmti-v, minimized average nmr2 structure)

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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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