Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	K	R	N	L	P	L	M	I	T	I	G	V	F	V	L	G	Y	L	Y	C	L	T	Q	F	P	G	F	A	S	T	R	V	I	C	N	I	L	T	D	N	A	F	L	G	I	I	A	V	G	M	T	F	V	I	L	S	G	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	D	L	S	V	G	S	V	I	A	F	T	G	V	F	L	A	K	V	I	G	D	F	G	L	S	P	L	L	A	F	P	L	V	L	V	M	G	C	A	F	G	A	F	M	G	L	L	I	D	A	L	K	I	P	A	F	I	I	T
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	A	G	M	F	F	L	R	G	V	S	Y	L	V	S	E	E	S	I	P	I	N	H	P	I	Y	D	T	L	S	S	L	A	W	K	I	P	G	G	G	R	L	S	A	M	G	L	L	M	L	A	V	V	V	I	G	I	F	L	A
Secondary structure
SS confidence
Disorder																			?	?	?	?	?		?	?	?	?							?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		H	R	T	R	F	G	N	Q	V	Y	A	I	G	G	N	A	T	S	A	N	L	M	G	I	S	T	R	S	T	T	I	R	I	Y	M	L	S	T	G	L	A	T	L	A	G	I	V	F	S	I	Y	T	Q	A	G	Y	A	L	A	G
Secondary structure
SS confidence
Disorder																																																					?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		V	G	V	E	L	D	A	I	A	S	V	V	I	G	G	T	L	L	S	G	G	V	G	T	V	L	G	T	L	F	G	V	A	I	Q	G	L	I	Q	T	Y	I	N	F	D	G	T	L	S	S	W	W	T	K	I	A	I	G	I	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.
Sequence		L	F	I	F	I	A	L	Q	R	G	L	T	V	L	W	E	N	R	Q	S	S	P	V	T	R	V	N	I	A	Q	Q
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 2nq2 chain A Region: 72 - 224 Aligned: 148 Modelled: 153 Confidence: 98.4% Identity: 11% PDB header:metal transport Chain: A: PDB Molecule:hypothetical abc transporter permease protein PDBTitle: an inward-facing conformation of a putative metal-chelate2 type abc transporter. Phyre2 PDB 1l7v chain A Region: 3 - 224 Aligned: 213 Modelled: 217 Confidence: 96.9% Identity: 12% Fold: ABC transporter involved in vitamin B12 uptake, BtuC Superfamily: ABC transporter involved in vitamin B12 uptake, BtuC Family: ABC transporter involved in vitamin B12 uptake, BtuC Phyre2 PDB 2e74 chain G domain 1 Region: 215 - 238 Aligned: 24 Modelled: 24 Confidence: 24.5% Identity: 29% Fold: Single transmembrane helix Superfamily: PetG subunit of the cytochrome b6f complex Family: PetG subunit of the cytochrome b6f complex Phyre2 PDB 2jp3 chain A Region: 290 - 331 Aligned: 42 Modelled: 42 Confidence: 23.3% Identity: 10% PDB header:transcription Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4; PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles Phyre2 PDB 2knc chain A Region: 296 - 331 Aligned: 36 Modelled: 36 Confidence: 22.1% Identity: 19% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 3pxp chain A Region: 180 - 212 Aligned: 33 Modelled: 32 Confidence: 17.7% Identity: 21% PDB header:transcription regulator Chain: A: PDB Molecule:helix-turn-helix domain protein; PDBTitle: crystal structure of a pas and dna binding domain containing protein2 (caur_2278) from chloroflexus aurantiacus j-10-fl at 2.30 a3 resolution Phyre2 PDB 2w8a chain C Region: 265 - 331 Aligned: 67 Modelled: 67 Confidence: 14.9% Identity: 12% PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate Phyre2 PDB 1vf5 chain G Region: 215 - 234 Aligned: 20 Modelled: 20 Confidence: 8.6% Identity: 35% Fold: Single transmembrane helix Superfamily: PetG subunit of the cytochrome b6f complex Family: PetG subunit of the cytochrome b6f complex Phyre2 PDB 1vf5 chain G Region: 215 - 234 Aligned: 20 Modelled: 20 Confidence: 8.6% Identity: 35% PDB header:photosynthesis Chain: G: PDB Molecule:protein pet g; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus Phyre2 PDB 1etg chain B Region: 308 - 325 Aligned: 18 Modelled: 18 Confidence: 8.4% Identity: 28% PDB header:viral protein/rna Chain: B: PDB Molecule:rev peptide; PDBTitle: rev response element (rre) rna complexed with rev peptide,2 nmr, 19 structures Phyre2 PDB 1etf chain B Region: 308 - 325 Aligned: 18 Modelled: 18 Confidence: 8.4% Identity: 28% PDB header:viral protein/rna Chain: B: PDB Molecule:rev peptide; PDBTitle: rev response element (rre) rna complexed with rev peptide,2 nmr, minimized average structure Phyre2 PDB 3dh4 chain A Region: 39 - 181 Aligned: 143 Modelled: 143 Confidence: 8.1% Identity: 12% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus Phyre2 PDB 1y6u chain A Region: 196 - 213 Aligned: 18 Modelled: 18 Confidence: 7.6% Identity: 6% PDB header:dna binding protein Chain: A: PDB Molecule:excisionase from transposon tn916; PDBTitle: the structure of the excisionase (xis) protein from2 conjugative transposon tn916 provides insights into the3 regulation of heterobivalent tyrosine recombinases Phyre2 PDB 3u5e chain L Region: 188 - 207 Aligned: 20 Modelled: 20 Confidence: 7.2% Identity: 35% PDB header:ribosome Chain: L: PDB Molecule:60s ribosomal protein l13-a; PDBTitle: the structure of the eukaryotic ribosome at 3.0 resolution Phyre2 PDB 4a18 chain U Region: 188 - 207 Aligned: 20 Modelled: 20 Confidence: 7.1% Identity: 30% PDB header:ribosome Chain: U: PDB Molecule:rpl13; PDBTitle: t.thermophila 60s ribosomal subunit in complex with initiation2 factor 6. this file contains 26s rrna and proteins of molecule 1 Phyre2 PDB 1u7g chain A Region: 2 - 184 Aligned: 182 Modelled: 183 Confidence: 5.7% Identity: 13% Fold: Ammonium transporter Superfamily: Ammonium transporter Family: Ammonium transporter Phyre2 1 c2nq2A_ 2 d1l7va_ 3 d2e74g1 4 c2jp3A_ 5 c2kncA_ 6 c3pxpA_ 7 c2w8aC_ 8 d1vf5g_ 9 c1vf5G_ 10 c1etgB_ 11 c1etfB_ 12 c3dh4A_ 13 c1y6uA_ 14 c3u5eL_ 15 c4a18U_ 16 d1u7ga_

Detailed template information

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

1 c2nq2A_ 98.4 11 PDB header:metal transport Chain: A: PDB Molecule:hypothetical abc transporter permease protein PDBTitle: an inward-facing conformation of a putative metal-chelate2 type abc transporter. 2 d1l7va_ 96.9 12 Fold:ABC transporter involved in vitamin B12 uptake, BtuC Superfamily:ABC transporter involved in vitamin B12 uptake, BtuC Family:ABC transporter involved in vitamin B12 uptake, BtuC 3 d2e74g1 24.5 29 Fold:Single transmembrane helix Superfamily:PetG subunit of the cytochrome b6f complex Family:PetG subunit of the cytochrome b6f complex 4 c2jp3A_ 23.3 10 PDB header:transcription Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4; PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles 5 c2kncA_ 22.1 19 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 6 c3pxpA_ 17.7 21 PDB header:transcription regulator Chain: A: PDB Molecule:helix-turn-helix domain protein; PDBTitle: crystal structure of a pas and dna binding domain containing protein2 (caur_2278) from chloroflexus aurantiacus j-10-fl at 2.30 a3 resolution 7 c2w8aC_ 14.9 12 PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate 8 d1vf5g_ 8.6 35 Fold:Single transmembrane helix Superfamily:PetG subunit of the cytochrome b6f complex Family:PetG subunit of the cytochrome b6f complex 9 c1vf5G_ 8.6 35 PDB header:photosynthesis Chain: G: PDB Molecule:protein pet g; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus 10 c1etgB_ 8.4 28 PDB header:viral protein/rna Chain: B: PDB Molecule:rev peptide; PDBTitle: rev response element (rre) rna complexed with rev peptide,2 nmr, 19 structures 11 c1etfB_ 8.4 28 PDB header:viral protein/rna Chain: B: PDB Molecule:rev peptide; PDBTitle: rev response element (rre) rna complexed with rev peptide,2 nmr, minimized average structure 12 c3dh4A_ 8.1 12 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus 13 c1y6uA_ 7.6 6 PDB header:dna binding protein Chain: A: PDB Molecule:excisionase from transposon tn916; PDBTitle: the structure of the excisionase (xis) protein from2 conjugative transposon tn916 provides insights into the3 regulation of heterobivalent tyrosine recombinases 14 c3u5eL_ 7.2 35 PDB header:ribosome Chain: L: PDB Molecule:60s ribosomal protein l13-a; PDBTitle: the structure of the eukaryotic ribosome at 3.0 resolution 15 c4a18U_ 7.1 30 PDB header:ribosome Chain: U: PDB Molecule:rpl13; PDBTitle: t.thermophila 60s ribosomal subunit in complex with initiation2 factor 6. this file contains 26s rrna and proteins of molecule 1 16 d1u7ga_ 5.7 13 Fold:Ammonium transporter Superfamily:Ammonium transporter Family:Ammonium transporter

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