Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	K	S	N	P	S	E	V	K	L	A	V	P	T	S	G	G	F	S	G	L	K	S	L	N	L	Q	V	F	V	M	I	A	A	I	I	A	I	M	L	F	F	T	W	T	T	D	G	A	Y	L	S	A	R	N	V	S	N	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?					?	?	?	?																				?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	R	Q	T	A	I	T	G	I	L	A	V	G	M	V	F	V	I	I	S	A	E	I	D	L	S	V	G	S	M	M	G	L	L	G	G	V	A	A	I	C	D	V	W	L	G	W	P	L	P	L	T	I	I	V	T	L	V	L	G
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	L	L	G	A	W	N	G	W	W	V	A	Y	R	K	V	P	S	F	I	V	T	L	A	G	M	L	A	F	R	G	I	L	I	G	I	T	N	G	T	T	V	S	P	T	S	A	A	M	S	Q	I	G	Q	S	Y	L	P	A	S
Secondary structure
SS confidence
Disorder																																									?		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		T	G	F	I	I	G	A	L	G	L	M	A	F	V	G	W	Q	W	R	G	R	M	R	R	Q	A	L	G	L	Q	S	P	A	S	T	A	V	V	G	R	Q	A	L	T	A	I	I	V	L	G	A	I	W	L	L	N	D	Y	R	G
Secondary structure
SS confidence
Disorder																							?	?	?	?	?	?	?	?			?	?	?	?	?	?	?		?	?	?	?	?					?	?			?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		V	P	T	P	V	L	L	L	T	L	L	L	L	G	G	M	F	M	A	T	R	T	A	F	G	R	R	I	Y	A	I	G	G	N	L	E	A	A	R	L	S	G	I	N	V	E	R	T	K	L	A	V	F	A	I	N	G	L	M	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		A	I	A	G	L	I	L	S	S	R	L	G	A	G	S	P	S	A	G	N	I	A	E	L	D	A	I	A	A	C	V	I	G	G	T	S	L	A	G	G	V	G	S	V	A	G	A	V	M	G	A	F	I	M	A	S	L	D	N	G
Secondary structure
SS confidence
Disorder												?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.
Sequence		M	S	M	M	D	V	P	T	F	W	Q	Y	I	V	K	G	A	I	L	L	L	A	V	W	M	D	S	A	T	K	R	R	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 2nq2 chain A Region: 26 - 303 Aligned: 216 Modelled: 222 Confidence: 96.9% 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: 20 - 303 Aligned: 218 Modelled: 217 Confidence: 95.8% Identity: 15% 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 3u5e chain L Region: 267 - 289 Aligned: 23 Modelled: 23 Confidence: 21.9% Identity: 30% 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: 267 - 289 Aligned: 23 Modelled: 23 Confidence: 21.5% Identity: 26% 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 3pxp chain A Region: 259 - 291 Aligned: 33 Modelled: 32 Confidence: 17.4% Identity: 18% 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 2e74 chain G domain 1 Region: 294 - 317 Aligned: 24 Modelled: 24 Confidence: 16.9% Identity: 13% Fold: Single transmembrane helix Superfamily: PetG subunit of the cytochrome b6f complex Family: PetG subunit of the cytochrome b6f complex Phyre2 PDB 1y6u chain A Region: 275 - 292 Aligned: 18 Modelled: 18 Confidence: 14.0% Identity: 17% 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 1nhp chain A domain 3 Region: 264 - 286 Aligned: 23 Modelled: 23 Confidence: 10.8% Identity: 22% Fold: CO dehydrogenase flavoprotein C-domain-like Superfamily: FAD/NAD-linked reductases, dimerisation (C-terminal) domain Family: FAD/NAD-linked reductases, dimerisation (C-terminal) domain Phyre2 PDB 1rp1 chain A domain 2 Region: 275 - 304 Aligned: 30 Modelled: 30 Confidence: 8.3% Identity: 10% Fold: alpha/beta-Hydrolases Superfamily: alpha/beta-Hydrolases Family: Pancreatic lipase, N-terminal domain Phyre2 PDB 1vf5 chain G Region: 294 - 313 Aligned: 20 Modelled: 20 Confidence: 7.3% Identity: 10% 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: 294 - 313 Aligned: 20 Modelled: 20 Confidence: 7.3% Identity: 10% PDB header:photosynthesis Chain: G: PDB Molecule:protein pet g; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus Phyre2 PDB 3b9y chain A Region: 14 - 135 Aligned: 121 Modelled: 122 Confidence: 6.9% Identity: 11% PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein Phyre2 PDB 2b2h chain A Region: 14 - 288 Aligned: 211 Modelled: 220 Confidence: 6.2% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter; PDBTitle: ammonium transporter amt-1 from a. fulgidus (as) Phyre2 PDB 1hpl chain A domain 2 Region: 275 - 315 Aligned: 41 Modelled: 41 Confidence: 6.0% Identity: 7% Fold: alpha/beta-Hydrolases Superfamily: alpha/beta-Hydrolases Family: Pancreatic lipase, N-terminal domain Phyre2 PDB 3geb chain C Region: 261 - 289 Aligned: 29 Modelled: 29 Confidence: 6.0% Identity: 28% PDB header:hydrolase Chain: C: PDB Molecule:eyes absent homolog 2; PDBTitle: crystal structure of edeya2 Phyre2 PDB 1bu8 chain A domain 2 Region: 275 - 315 Aligned: 41 Modelled: 41 Confidence: 5.7% Identity: 20% Fold: alpha/beta-Hydrolases Superfamily: alpha/beta-Hydrolases Family: Pancreatic lipase, N-terminal domain Phyre2 PDB 1gpl chain A domain 2 Region: 275 - 304 Aligned: 30 Modelled: 30 Confidence: 5.6% Identity: 10% Fold: alpha/beta-Hydrolases Superfamily: alpha/beta-Hydrolases Family: Pancreatic lipase, N-terminal domain Phyre2 PDB 1bcc chain C domain 2 Region: 4 - 82 Aligned: 79 Modelled: 79 Confidence: 5.5% Identity: 14% Fold: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Phyre2 PDB 1eth chain A domain 2 Region: 275 - 315 Aligned: 41 Modelled: 41 Confidence: 5.2% Identity: 7% Fold: alpha/beta-Hydrolases Superfamily: alpha/beta-Hydrolases Family: Pancreatic lipase, N-terminal domain Phyre2 1 c2nq2A_ 2 d1l7va_ 3 c3u5eL_ 4 c4a18U_ 5 c3pxpA_ 6 d2e74g1 7 c1y6uA_ 8 d1nhpa3 9 d1rp1a2 10 d1vf5g_ 11 c1vf5G_ 12 c3b9yA_ 13 c2b2hA_ 14 d1hpla2 15 c3gebC_ 16 d1bu8a2 17 d1gpla2 18 d1bccc2 19 d1etha2

Detailed template information

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

1 c2nq2A_ 96.9 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_ 95.8 15 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 c3u5eL_ 21.9 30 PDB header:ribosome Chain: L: PDB Molecule:60s ribosomal protein l13-a; PDBTitle: the structure of the eukaryotic ribosome at 3.0 resolution 4 c4a18U_ 21.5 26 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 5 c3pxpA_ 17.4 18 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 6 d2e74g1 16.9 13 Fold:Single transmembrane helix Superfamily:PetG subunit of the cytochrome b6f complex Family:PetG subunit of the cytochrome b6f complex 7 c1y6uA_ 14.0 17 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 8 d1nhpa3 10.8 22 Fold:CO dehydrogenase flavoprotein C-domain-like Superfamily:FAD/NAD-linked reductases, dimerisation (C-terminal) domain Family:FAD/NAD-linked reductases, dimerisation (C-terminal) domain 9 d1rp1a2 8.3 10 Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:Pancreatic lipase, N-terminal domain 10 d1vf5g_ 7.3 10 Fold:Single transmembrane helix Superfamily:PetG subunit of the cytochrome b6f complex Family:PetG subunit of the cytochrome b6f complex 11 c1vf5G_ 7.3 10 PDB header:photosynthesis Chain: G: PDB Molecule:protein pet g; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus 12 c3b9yA_ 6.9 11 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 13 c2b2hA_ 6.2 13 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter; PDBTitle: ammonium transporter amt-1 from a. fulgidus (as) 14 d1hpla2 6.0 7 Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:Pancreatic lipase, N-terminal domain 15 c3gebC_ 6.0 28 PDB header:hydrolase Chain: C: PDB Molecule:eyes absent homolog 2; PDBTitle: crystal structure of edeya2 16 d1bu8a2 5.7 20 Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:Pancreatic lipase, N-terminal domain 17 d1gpla2 5.6 10 Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:Pancreatic lipase, N-terminal domain 18 d1bccc2 5.5 14 Fold:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 19 d1etha2 5.2 7 Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:Pancreatic lipase, 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