Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	N	I	T	L	Q	K	Q	H	R	T	L	W	H	F	I	P	G	L	A	L	S	A	V	I	T	G	V	A	L	W	G	G	S	I	P	A	V	A	G	A	G	F	S	A	L	T	L	A	I	L	L	G	M	V	L	G	N	T
Secondary structure
SS confidence
Disorder		?	?	?																																				?	?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	Y	P	H	I	W	K	S	C	D	G	G	V	L	F	A	K	Q	Y	L	L	R	L	G	I	I	L	Y	G	F	R	L	T	F	S	Q	I	A	D	V	G	I	S	G	I	I	I	D	V	L	T	L	S	S	T	F	L	L	A	C
Secondary structure
SS confidence
Disorder					?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		F	L	G	Q	K	V	F	G	L	D	K	H	T	S	W	L	I	G	A	G	S	S	I	C	G	A	A	A	V	L	A	T	E	P	V	V	K	A	E	A	S	K	V	T	V	A	V	A	T	V	V	I	F	G	T	V	A	I	F	L
Secondary structure
SS confidence
Disorder												?	?																						?	?		?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		Y	P	A	I	Y	P	L	M	S	Q	W	F	S	P	E	T	F	G	I	Y	I	G	S	T	V	H	E	V	A	Q	V	V	A	A	G	H	A	I	S	P	D	A	E	N	A	A	V	I	S	K	M	L	R	V	M	M	L	A	P	F
Secondary structure
SS confidence
Disorder																																						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	I	L	L	A	A	R	V	K	Q	L	S	G	A	N	S	G	E	K	S	K	I	T	I	P	W	F	A	I	L	F	I	V	V	A	I	F	N	S	F	H	L	L	P	Q	S	V	V	N	M	L	V	T	L	D	T	F	L	L	A
Secondary structure
SS confidence
Disorder											?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.
Sequence		M	A	M	A	A	L	G	L	T	T	H	V	S	A	L	K	K	A	G	A	K	P	L	L	M	A	L	V	L	F	A	W	L	I	V	G	G	G	A	I	N	Y	V	I	Q	S	V	I	A
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 1zcd chain A Region: 9 - 176 Aligned: 159 Modelled: 168 Confidence: 60.9% Identity: 12% PDB header:membrane protein Chain: A: PDB Molecule:na(+)/h(+) antiporter 1; PDBTitle: crystal structure of the na+/h+ antiporter nhaa Phyre2 PDB 3lr4 chain A Region: 220 - 237 Aligned: 18 Modelled: 18 Confidence: 34.1% Identity: 28% PDB header:transferase Chain: A: PDB Molecule:sensor protein; PDBTitle: periplasmic domain of the riss sensor protein from burkholderia2 pseudomallei, barium phased at low ph Phyre2 PDB 2yvx chain D Region: 261 - 348 Aligned: 88 Modelled: 88 Confidence: 24.3% Identity: 11% PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte Phyre2 PDB 1woz chain A Region: 273 - 302 Aligned: 30 Modelled: 28 Confidence: 21.3% Identity: 20% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:177aa long conserved hypothetical protein (st1454); PDBTitle: crystal structure of uncharacterized protein st1454 from sulfolobus2 tokodaii Phyre2 PDB 2gke chain A domain 2 Region: 137 - 159 Aligned: 23 Modelled: 23 Confidence: 19.2% Identity: 26% Fold: Diaminopimelate epimerase-like Superfamily: Diaminopimelate epimerase-like Family: Diaminopimelate epimerase Phyre2 PDB 1pw4 chain A Region: 98 - 265 Aligned: 161 Modelled: 168 Confidence: 15.9% Identity: 11% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 1e3h chain A domain 2 Region: 142 - 155 Aligned: 14 Modelled: 14 Confidence: 14.4% Identity: 21% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: Ribonuclease PH domain 1-like Phyre2 PDB 3efe chain C Region: 142 - 160 Aligned: 19 Modelled: 19 Confidence: 13.8% Identity: 32% PDB header:chaperone Chain: C: PDB Molecule:thij/pfpi family protein; PDBTitle: the crystal structure of the thij/pfpi family protein from bacillus2 anthracis Phyre2 PDB 2idx chain A Region: 283 - 302 Aligned: 20 Modelled: 20 Confidence: 13.1% Identity: 25% PDB header:transferase Chain: A: PDB Molecule:cob(i)yrinic acid a,c-diamide PDBTitle: structure of human atp:cobalamin adenosyltransferase bound2 to atp. Phyre2 PDB 1wy1 chain B Region: 274 - 302 Aligned: 29 Modelled: 29 Confidence: 12.8% Identity: 21% PDB header:transferase Chain: B: PDB Molecule:hypothetical protein ph0671; PDBTitle: crystal structure of the ph0671 protein from pyrococcus horikoshii ot3 Phyre2 PDB 1nog chain A Region: 274 - 302 Aligned: 29 Modelled: 29 Confidence: 12.1% Identity: 14% Fold: Ferritin-like Superfamily: Cobalamin adenosyltransferase-like Family: Cobalamin adenosyltransferase Phyre2 PDB 1nog chain A Region: 274 - 302 Aligned: 29 Modelled: 29 Confidence: 12.1% Identity: 14% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved hypothetical protein ta0546; PDBTitle: crystal structure of conserved protein 0546 from thermoplasma2 acidophilum Phyre2 PDB 1zq1 chain C domain 1 Region: 312 - 333 Aligned: 22 Modelled: 22 Confidence: 12.0% Identity: 36% Fold: GatB/YqeY motif Superfamily: GatB/YqeY motif Family: GatB/GatE C-terminal domain-like Phyre2 PDB 2ah6 chain B Region: 274 - 302 Aligned: 29 Modelled: 29 Confidence: 11.3% Identity: 21% PDB header:transferase Chain: B: PDB Molecule:bh1595, unknown conserved protein; PDBTitle: crystal structure of a putative cobalamin adenosyltransferase (bh1595)2 from bacillus halodurans c-125 at 1.60 a resolution Phyre2 PDB 2g2d chain A Region: 283 - 302 Aligned: 20 Modelled: 20 Confidence: 11.3% Identity: 15% PDB header:transferase Chain: A: PDB Molecule:atp:cobalamin adenosyltransferase; PDBTitle: crystal structure of a putative pduo-type atp:cobalamin2 adenosyltransferase from mycobacterium tuberculosis Phyre2 PDB 1rty chain A Region: 274 - 302 Aligned: 29 Modelled: 29 Confidence: 11.1% Identity: 21% Fold: Ferritin-like Superfamily: Cobalamin adenosyltransferase-like Family: Cobalamin adenosyltransferase Phyre2 PDB 3f5d chain A Region: 142 - 160 Aligned: 19 Modelled: 19 Confidence: 10.4% Identity: 32% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein ydea; PDBTitle: crystal structure of a protein of unknown function from2 bacillus subtilis Phyre2 PDB 2nt8 chain A Region: 274 - 305 Aligned: 32 Modelled: 32 Confidence: 10.3% Identity: 19% PDB header:transferase Chain: A: PDB Molecule:cobalamin adenosyltransferase; PDBTitle: atp bound at the active site of a pduo type atp:co(i)rrinoid2 adenosyltransferase from lactobacillus reuteri Phyre2 PDB 2zhz chain C Region: 274 - 302 Aligned: 29 Modelled: 29 Confidence: 10.2% Identity: 14% PDB header:transferase Chain: C: PDB Molecule:atp:cob(i)alamin adenosyltransferase, putative; PDBTitle: crystal structure of a pduo-type atp:cobalamin adenosyltransferase2 from burkholderia thailandensis Phyre2 PDB 3ke4 chain B Region: 274 - 305 Aligned: 32 Modelled: 32 Confidence: 10.0% Identity: 16% PDB header:transferase Chain: B: PDB Molecule:hypothetical cytosolic protein; PDBTitle: crystal structure of a pduo-type atp:cob(i)alamin adenosyltransferase2 from bacillus cereus Phyre2 1 c1zcdA_ 2 c3lr4A_ 3 c2yvxD_ 4 c1wozA_ 5 d2gkea2 6 d1pw4a_ 7 d1e3ha2 8 c3efeC_ 9 c2idxA_ 10 c1wy1B_ 11 d1noga_ 12 c1nogA_ 13 d1zq1c1 14 c2ah6B_ 15 c2g2dA_ 16 d1rtya_ 17 c3f5dA_ 18 c2nt8A_ 19 c2zhzC_ 20 c3ke4B_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38

Detailed template information

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

1 c1zcdA_ 60.9 12 PDB header:membrane protein Chain: A: PDB Molecule:na(+)/h(+) antiporter 1; PDBTitle: crystal structure of the na+/h+ antiporter nhaa 2 c3lr4A_ 34.1 28 PDB header:transferase Chain: A: PDB Molecule:sensor protein; PDBTitle: periplasmic domain of the riss sensor protein from burkholderia2 pseudomallei, barium phased at low ph 3 c2yvxD_ 24.3 11 PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte 4 c1wozA_ 21.3 20 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:177aa long conserved hypothetical protein (st1454); PDBTitle: crystal structure of uncharacterized protein st1454 from sulfolobus2 tokodaii 5 d2gkea2 19.2 26 Fold:Diaminopimelate epimerase-like Superfamily:Diaminopimelate epimerase-like Family:Diaminopimelate epimerase 6 d1pw4a_ 15.9 11 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 7 d1e3ha2 14.4 21 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:Ribonuclease PH domain 1-like 8 c3efeC_ 13.8 32 PDB header:chaperone Chain: C: PDB Molecule:thij/pfpi family protein; PDBTitle: the crystal structure of the thij/pfpi family protein from bacillus2 anthracis 9 c2idxA_ 13.1 25 PDB header:transferase Chain: A: PDB Molecule:cob(i)yrinic acid a,c-diamide PDBTitle: structure of human atp:cobalamin adenosyltransferase bound2 to atp. 10 c1wy1B_ 12.8 21 PDB header:transferase Chain: B: PDB Molecule:hypothetical protein ph0671; PDBTitle: crystal structure of the ph0671 protein from pyrococcus horikoshii ot3 11 d1noga_ 12.1 14 Fold:Ferritin-like Superfamily:Cobalamin adenosyltransferase-like Family:Cobalamin adenosyltransferase 12 c1nogA_ 12.1 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved hypothetical protein ta0546; PDBTitle: crystal structure of conserved protein 0546 from thermoplasma2 acidophilum 13 d1zq1c1 12.0 36 Fold:GatB/YqeY motif Superfamily:GatB/YqeY motif Family:GatB/GatE C-terminal domain-like 14 c2ah6B_ 11.3 21 PDB header:transferase Chain: B: PDB Molecule:bh1595, unknown conserved protein; PDBTitle: crystal structure of a putative cobalamin adenosyltransferase (bh1595)2 from bacillus halodurans c-125 at 1.60 a resolution 15 c2g2dA_ 11.3 15 PDB header:transferase Chain: A: PDB Molecule:atp:cobalamin adenosyltransferase; PDBTitle: crystal structure of a putative pduo-type atp:cobalamin2 adenosyltransferase from mycobacterium tuberculosis 16 d1rtya_ 11.1 21 Fold:Ferritin-like Superfamily:Cobalamin adenosyltransferase-like Family:Cobalamin adenosyltransferase 17 c3f5dA_ 10.4 32 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein ydea; PDBTitle: crystal structure of a protein of unknown function from2 bacillus subtilis 18 c2nt8A_ 10.3 19 PDB header:transferase Chain: A: PDB Molecule:cobalamin adenosyltransferase; PDBTitle: atp bound at the active site of a pduo type atp:co(i)rrinoid2 adenosyltransferase from lactobacillus reuteri 19 c2zhzC_ 10.2 14 PDB header:transferase Chain: C: PDB Molecule:atp:cob(i)alamin adenosyltransferase, putative; PDBTitle: crystal structure of a pduo-type atp:cobalamin adenosyltransferase2 from burkholderia thailandensis 20 c3ke4B_ 10.0 16 PDB header:transferase Chain: B: PDB Molecule:hypothetical cytosolic protein; PDBTitle: crystal structure of a pduo-type atp:cob(i)alamin adenosyltransferase2 from bacillus cereus 21 d2fexa1 not modelled 9.9 37 Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:DJ-1/PfpI 22 c3ci1A_ not modelled 9.5 19 PDB header:transferase Chain: A: PDB Molecule:cobalamin adenosyltransferase pduo-like protein; PDBTitle: structure of the pduo-type atp:co(i)rrinoid2 adenosyltransferase from lactobacillus reuteri complexed3 with four-coordinate cob(ii)alamin and atp 23 d1fftb2 not modelled 9.0 22 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 24 c2hp0A_ not modelled 9.0 21 PDB header:isomerase Chain: A: PDB Molecule:ids-epimerase; PDBTitle: crystal structure of iminodisuccinate epimerase 25 d1rtyb_ not modelled 8.8 21 Fold:Ferritin-like Superfamily:Cobalamin adenosyltransferase-like Family:Cobalamin adenosyltransferase 26 c1wvtA_ not modelled 7.9 16 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein st2180; PDBTitle: crystal structure of uncharacterized protein st2180 from sulfolobus2 tokodaii 27 d1z96a1 not modelled 7.8 35 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 28 c2g38A_ not modelled 7.5 23 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:pe family protein; PDBTitle: a pe/ppe protein complex from mycobacterium tuberculosis 29 d2g38a1 not modelled 7.5 23 Fold:Ferritin-like Superfamily:PE/PPE dimer-like Family:PE 30 d1rfza_ not modelled 7.3 14 Fold:YutG-like Superfamily:YutG-like Family:YutG-like 31 d1tlqa_ not modelled 6.7 7 Fold:YutG-like Superfamily:YutG-like Family:YutG-like 32 c1tlqA_ not modelled 6.7 7 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ypjq; PDBTitle: crystal structure of protein ypjq from bacillus subtilis, pfam duf64 33 d1szqa_ not modelled 6.5 9 Fold:2-methylcitrate dehydratase PrpD Superfamily:2-methylcitrate dehydratase PrpD Family:2-methylcitrate dehydratase PrpD 34 c3mgkA_ not modelled 6.4 21 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:intracellular protease/amidase related enzyme PDBTitle: crystal structure of probable protease/amidase from2 clostridium acetobutylicum atcc 824 35 c6rlxB_ not modelled 6.1 42 PDB header:hormone(muscle relaxant) Chain: B: PDB Molecule:relaxin, b-chain; PDBTitle: x-ray structure of human relaxin at 1.5 angstroms. comparison to2 insulin and implications for receptor binding determinants 36 d1vf5b_ not modelled 6.0 13 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) 37 d3dtub2 not modelled 5.9 16 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 38 d1sy7a1 not modelled 5.1 11 Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:Catalase, C-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

---

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