Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	I	S	I	K	G	V	N	T	G	V	I	R	K	S	N	N	F	I	A	L	A	L	K	I	K	E	P	R	N	K	E	S	L	F	F	M	S	V	M	E	L	R	D	L	L	I	A	L	E	S	R	L	H	Q	K	H	K	L
Secondary structure
SS confidence
Disorder		?	?	?																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		D	A	A	A	H	L	Q	Y	E	Q	A	R	D	K	V	I	K	K	M	A	E	N	I	P	E	I	L	V	D	E	L	K	N	A	D	I	N	R	R	V	N	T	L	E	L	T	D	N	Q	G	E	N	L	T	F	V	L	T	L	H
Secondary structure
SS confidence
Disorder								?																									?	?	?													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		D	G	S	K	C	E	L	V	V	N	E	L	Q	I	E	M	L	A	R	A	I	I	H	A	I	N	N	A	E	M	R	E	L	A	L	R	I	T	S	L	L	D	F	L	P	L	Y	D	V	D	C	Q	D	N	G	N	L	E	Y	D
Secondary structure
SS confidence
Disorder																																																											?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		T	Y	S	Q	P	E	W	K	H	N	L	F	D	H	Y	L	A	V	L	Y	R	F	K	D	E	S	G	K	E	Q	F	S	G	A	V	V	K	T	R	E	A	T	P	G	K	E	I	E	A	I	T	R	R	M	L	D	F	S	P	R
Secondary structure
SS confidence
Disorder		?		?	?																								?						?			?	?	?	?	?	?														?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.
Sequence		L	K	K	L	A	G	V	P	C	Q	V	Y	V	R	T	V	A	A	N	N	A	Q	P	L	T	Q	D	Q	C	L	R	A	L	H	H	L	R	V	Q	S	T	S	K	T	A	P	Q	A	K
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 3fgg chain A Region: 174 - 186 Aligned: 13 Modelled: 13 Confidence: 32.7% Identity: 46% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein bce2196; PDBTitle: crystal structure of putative ecf-type sigma factor negative effector2 from bacillus cereus Phyre2 PDB 1nw1 chain A Region: 167 - 239 Aligned: 57 Modelled: 57 Confidence: 22.4% Identity: 23% PDB header:transferase Chain: A: PDB Molecule:choline kinase (49.2 kd); PDBTitle: crystal structure of choline kinase Phyre2 PDB 1nw1 chain A Region: 167 - 239 Aligned: 57 Modelled: 57 Confidence: 22.4% Identity: 23% Fold: Protein kinase-like (PK-like) Superfamily: Protein kinase-like (PK-like) Family: Choline kinase Phyre2 PDB 1v5m chain A Region: 98 - 147 Aligned: 47 Modelled: 50 Confidence: 21.7% Identity: 26% Fold: PH domain-like barrel Superfamily: PH domain-like Family: Pleckstrin-homology domain (PH domain) Phyre2 PDB 3mes chain B Region: 167 - 211 Aligned: 45 Modelled: 45 Confidence: 17.9% Identity: 16% PDB header:transferase Chain: B: PDB Molecule:choline kinase; PDBTitle: crystal structure of choline kinase from cryptosporidium2 parvum iowa ii, cgd3_2030 Phyre2 PDB 1bbp chain A Region: 197 - 235 Aligned: 39 Modelled: 39 Confidence: 14.0% Identity: 23% Fold: Lipocalins Superfamily: Lipocalins Family: Retinol binding protein-like Phyre2 PDB 2hzq chain A Region: 197 - 238 Aligned: 42 Modelled: 42 Confidence: 13.8% Identity: 17% PDB header:transport protein Chain: A: PDB Molecule:apolipoprotein d; PDBTitle: crystal structure of human apolipoprotein d (apod) in2 complex with progesterone Phyre2 PDB 2ox7 chain A domain 1 Region: 202 - 219 Aligned: 18 Modelled: 18 Confidence: 13.7% Identity: 33% Fold: YopX-like Superfamily: YopX-like Family: YopX-like Phyre2 PDB 3ha4 chain C Region: 212 - 236 Aligned: 25 Modelled: 25 Confidence: 13.4% Identity: 24% PDB header:unknown function Chain: C: PDB Molecule:mix1; PDBTitle: crystal structure of the type one membrane protein mix1 from2 leishmania Phyre2 PDB 1gka chain B Region: 197 - 237 Aligned: 40 Modelled: 41 Confidence: 12.7% Identity: 13% Fold: Lipocalins Superfamily: Lipocalins Family: Retinol binding protein-like Phyre2 PDB 1axi chain A Region: 146 - 208 Aligned: 48 Modelled: 63 Confidence: 12.3% Identity: 27% Fold: 4-helical cytokines Superfamily: 4-helical cytokines Family: Long-chain cytokines Phyre2 PDB 2b7e chain A domain 1 Region: 183 - 196 Aligned: 14 Modelled: 14 Confidence: 11.2% Identity: 43% Fold: Another 3-helical bundle Superfamily: FF domain Family: FF domain Phyre2 PDB 1zxj chain B Region: 188 - 237 Aligned: 43 Modelled: 50 Confidence: 10.7% Identity: 21% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein mg377 homolog; PDBTitle: crystal structure of the hypthetical mycoplasma protein,2 mpn555 Phyre2 PDB 1h4t chain D Region: 193 - 277 Aligned: 77 Modelled: 83 Confidence: 10.4% Identity: 25% PDB header:aminoacyl-trna synthetase Chain: D: PDB Molecule:prolyl-trna synthetase; PDBTitle: prolyl-trna synthetase from thermus thermophilus complexed2 with l-proline Phyre2 PDB 2p84 chain A domain 1 Region: 202 - 217 Aligned: 16 Modelled: 16 Confidence: 10.0% Identity: 31% Fold: YopX-like Superfamily: YopX-like Family: YopX-like Phyre2 PDB 2qyz chain A Region: 202 - 217 Aligned: 16 Modelled: 16 Confidence: 9.9% Identity: 38% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the uncharacterized protein ctc02137 from2 clostridium tetani e88 Phyre2 PDB 1osc chain E Region: 199 - 261 Aligned: 52 Modelled: 63 Confidence: 9.0% Identity: 13% Fold: Ferredoxin-like Superfamily: GlnB-like Family: Divalent ion tolerance proteins CutA (CutA1) Phyre2 PDB 1pm1 chain X Region: 197 - 244 Aligned: 47 Modelled: 48 Confidence: 8.8% Identity: 13% Fold: Lipocalins Superfamily: Lipocalins Family: Retinol binding protein-like Phyre2 PDB 3c8u chain A Region: 80 - 115 Aligned: 35 Modelled: 36 Confidence: 8.7% Identity: 14% PDB header:transferase Chain: A: PDB Molecule:fructokinase; PDBTitle: crystal structure of putative fructose transport system kinase2 (yp_612366.1) from silicibacter sp. tm1040 at 1.95 a resolution Phyre2 PDB 1whr chain A Region: 137 - 219 Aligned: 76 Modelled: 83 Confidence: 8.0% Identity: 14% Fold: IF3-like Superfamily: R3H domain Family: R3H domain Phyre2 1 c3fggA_ 2 c1nw1A_ 3 d1nw1a_ 4 d1v5ma_ 5 c3mesB_ 6 d1bbpa_ 7 c2hzqA_ 8 d2ox7a1 9 c3ha4C_ 10 d1gkab_ 11 d1axia_ 12 d2b7ea1 13 c1zxjB_ 14 c1h4tD_ 15 d2p84a1 16 c2qyzA_ 17 d1osce_ 18 d1pm1x_ 19 c3c8uA_ 20 d1whra_ 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

Detailed template information

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

1 c3fggA_ 32.7 46 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein bce2196; PDBTitle: crystal structure of putative ecf-type sigma factor negative effector2 from bacillus cereus 2 c1nw1A_ 22.4 23 PDB header:transferase Chain: A: PDB Molecule:choline kinase (49.2 kd); PDBTitle: crystal structure of choline kinase 3 d1nw1a_ 22.4 23 Fold:Protein kinase-like (PK-like) Superfamily:Protein kinase-like (PK-like) Family:Choline kinase 4 d1v5ma_ 21.7 26 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Pleckstrin-homology domain (PH domain) 5 c3mesB_ 17.9 16 PDB header:transferase Chain: B: PDB Molecule:choline kinase; PDBTitle: crystal structure of choline kinase from cryptosporidium2 parvum iowa ii, cgd3_2030 6 d1bbpa_ 14.0 23 Fold:Lipocalins Superfamily:Lipocalins Family:Retinol binding protein-like 7 c2hzqA_ 13.8 17 PDB header:transport protein Chain: A: PDB Molecule:apolipoprotein d; PDBTitle: crystal structure of human apolipoprotein d (apod) in2 complex with progesterone 8 d2ox7a1 13.7 33 Fold:YopX-like Superfamily:YopX-like Family:YopX-like 9 c3ha4C_ 13.4 24 PDB header:unknown function Chain: C: PDB Molecule:mix1; PDBTitle: crystal structure of the type one membrane protein mix1 from2 leishmania 10 d1gkab_ 12.7 13 Fold:Lipocalins Superfamily:Lipocalins Family:Retinol binding protein-like 11 d1axia_ 12.3 27 Fold:4-helical cytokines Superfamily:4-helical cytokines Family:Long-chain cytokines 12 d2b7ea1 11.2 43 Fold:Another 3-helical bundle Superfamily:FF domain Family:FF domain 13 c1zxjB_ 10.7 21 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein mg377 homolog; PDBTitle: crystal structure of the hypthetical mycoplasma protein,2 mpn555 14 c1h4tD_ 10.4 25 PDB header:aminoacyl-trna synthetase Chain: D: PDB Molecule:prolyl-trna synthetase; PDBTitle: prolyl-trna synthetase from thermus thermophilus complexed2 with l-proline 15 d2p84a1 10.0 31 Fold:YopX-like Superfamily:YopX-like Family:YopX-like 16 c2qyzA_ 9.9 38 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the uncharacterized protein ctc02137 from2 clostridium tetani e88 17 d1osce_ 9.0 13 Fold:Ferredoxin-like Superfamily:GlnB-like Family:Divalent ion tolerance proteins CutA (CutA1) 18 d1pm1x_ 8.8 13 Fold:Lipocalins Superfamily:Lipocalins Family:Retinol binding protein-like 19 c3c8uA_ 8.7 14 PDB header:transferase Chain: A: PDB Molecule:fructokinase; PDBTitle: crystal structure of putative fructose transport system kinase2 (yp_612366.1) from silicibacter sp. tm1040 at 1.95 a resolution 20 d1whra_ 8.0 14 Fold:IF3-like Superfamily:R3H domain Family:R3H domain 21 c1wqdA_ not modelled 7.9 46 PDB header:toxin Chain: A: PDB Molecule:omtx2; PDBTitle: an unusual fold for potassium channel blockers: nmr2 structure of three toxins from the scorpion opisthacanthus3 madagascariensis 22 c3fwlA_ not modelled 7.9 21 PDB header:transferase, hydrolase Chain: A: PDB Molecule:penicillin-binding protein 1b; PDBTitle: crystal structure of the full-length transglycosylase pbp1b2 from escherichia coli 23 c3lx6B_ not modelled 7.7 21 PDB header:transferase Chain: B: PDB Molecule:cytosine-specific methyltransferase; PDBTitle: structure of probable cytosine-specific methyltransferase from2 shigella flexneri 24 d1hgua_ not modelled 7.4 17 Fold:4-helical cytokines Superfamily:4-helical cytokines Family:Long-chain cytokines 25 c1wqcA_ not modelled 7.3 46 PDB header:toxin Chain: A: PDB Molecule:omtx1; PDBTitle: an unusual fold for potassium channel blockers : nmr2 structure of three toxins from the scorpion opisthacanthus3 madagascariensis 26 d1v65a_ not modelled 7.2 25 Fold:KRAB domain (Kruppel-associated box) Superfamily:KRAB domain (Kruppel-associated box) Family:KRAB domain (Kruppel-associated box) 27 d1mg4a_ not modelled 7.2 40 Fold:beta-Grasp (ubiquitin-like) Superfamily:Doublecortin (DC) Family:Doublecortin (DC) 28 c2l23A_ not modelled 7.0 58 PDB header:transcription Chain: A: PDB Molecule:mediator of rna polymerase ii transcription subunit 25; PDBTitle: nmr structure of the acid (activator interacting domain) of the human2 mediator med25 protein 29 c3rfrI_ not modelled 6.9 13 PDB header:oxidoreductase Chain: I: PDB Molecule:pmob; PDBTitle: crystal structure of particulate methane monooxygenase (pmmo) from2 methylocystis sp. strain m 30 d1m8na_ not modelled 6.6 46 Fold:Single-stranded left-handed beta-helix Superfamily:An insect antifreeze protein Family:An insect antifreeze protein 31 d1clvi_ not modelled 6.5 71 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Plant inhibitors of proteinases and amylases Family:Plant inhibitors of proteinases and amylases 32 c3rgbA_ not modelled 6.3 19 PDB header:oxidoreductase Chain: A: PDB Molecule:methane monooxygenase subunit b2; PDBTitle: crystal structure of particulate methane monooxygenase from2 methylococcus capsulatus (bath) 33 c1yewI_ not modelled 6.3 19 PDB header:oxidoreductase, membrane protein Chain: I: PDB Molecule:particulate methane monooxygenase, b subunit; PDBTitle: crystal structure of particulate methane monooxygenase 34 c2qrvA_ not modelled 6.3 22 PDB header:transferase/transferase regulator Chain: A: PDB Molecule:dna (cytosine-5)-methyltransferase 3a; PDBTitle: structure of dnmt3a-dnmt3l c-terminal domain complex 35 c3dwlF_ not modelled 6.3 20 PDB header:structural protein Chain: F: PDB Molecule:actin-related protein 2/3 complex subunit 4; PDBTitle: crystal structure of fission yeast arp2/3 complex lacking the arp22 subunit 36 d1ewna_ not modelled 6.2 27 Fold:FMT C-terminal domain-like Superfamily:FMT C-terminal domain-like Family:3-methyladenine DNA glycosylase (AAG, ANPG, MPG) 37 c3chxE_ not modelled 6.0 12 PDB header:membrane protein Chain: E: PDB Molecule:pmob; PDBTitle: crystal structure of methylosinus trichosporium ob3b2 particulate methane monooxygenase (pmmo) 38 c2qrvC_ not modelled 5.9 20 PDB header:transferase/transferase regulator Chain: C: PDB Molecule:dna (cytosine-5)-methyltransferase 3-like; PDBTitle: structure of dnmt3a-dnmt3l c-terminal domain complex 39 d1wjpa2 not modelled 5.9 46 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 40 d1v7wa2 not modelled 5.8 13 Fold:Supersandwich Superfamily:Galactose mutarotase-like Family:Glycosyltransferase family 36 N-terminal domain 41 d1n0sa_ not modelled 5.8 20 Fold:Lipocalins Superfamily:Lipocalins Family:Retinol binding protein-like 42 d1mjda_ not modelled 5.8 33 Fold:beta-Grasp (ubiquitin-like) Superfamily:Doublecortin (DC) Family:Doublecortin (DC) 43 d2axla1 not modelled 5.5 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:RecQ helicase DNA-binding domain-like 44 d1e6ya1 not modelled 5.2 46 Fold:Methyl-coenzyme M reductase alpha and beta chain C-terminal domain Superfamily:Methyl-coenzyme M reductase alpha and beta chain C-terminal domain Family:Methyl-coenzyme M reductase alpha and beta chain C-terminal domain 45 c3c5iD_ not modelled 5.2 16 PDB header:transferase Chain: D: PDB Molecule:choline kinase; PDBTitle: crystal structure of plasmodium knowlesi choline kinase, pkh_134520 46 c1ydiB_ not modelled 5.1 37 PDB header:cell adhesion, structural protein Chain: B: PDB Molecule:alpha-actinin 4; PDBTitle: human vinculin head domain (vh1, 1-258) in complex with2 human alpha-actinin's vinculin-binding site (residues 731-3 760) 47 c1zx3A_ not modelled 5.1 30 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ne0241; PDBTitle: structure of ne0241 protein of unknown function from nitrosomonas2 europaea

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