Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	M	Y	R	V	N	H	I	M	R	T	I	N	E	M	S	S	Y	T	P	H	M	K	V	N	R	I	A	E	R	L	S	K	V	Q	K	I	S	F	C	I	S	V	I	S	F	F	L	L	A	I	I	T	L	T	Y	G	P	F	N
Secondary structure
SS confidence
Disorder		?	?	?	?											?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	K	S	N	L	S	F	I	S	A	L	S	L	Y	F	I	N	V	I	M	G	V	T	Y	L	S	V	P	V	I	N	T	I	K	Y	I	Y	N	F	K	G	E	V	V	N	E	L	I	Y	D	I	D	S	D	E	Q	H	I	E	A
Secondary structure
SS confidence
Disorder				?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	L	P	Y	S	L	E	E	L	T	Y	V	S	N	C	I	Q	V	R	I	P	K	I	K	S	K	C	F	L	W	G	G	G	K	T	A	I	I	S	I	L	C	L	S	Y	S	A	I	C	I	V	N	G	G	S	I	D	G	I	F
Secondary structure
SS confidence
Disorder																																																				?									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.
Sequence		V	G	E	T	G	D	K	I	I	V	A	I	M	F	F	I	L	Y	T	S	L	M	N	M	F	F	K	Q	K	L	L	Y	L	Q	N	L	K	M	I	I	D	M	T	I	K	I	K	R	N	F	T
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 3fse chain B Region: 99 - 177 Aligned: 78 Modelled: 79 Confidence: 63.8% Identity: 23% PDB header:hydrolase Chain: B: PDB Molecule:two-domain protein containing dj-1/thij/pfpi-like and PDBTitle: crystal structure of a two-domain protein containing dj-1/thij/pfpi-2 like and ferritin-like domains (ava_4496) from anabaena variabilis3 atcc 29413 at 1.90 a resolution Phyre2 PDB 3ipd chain B Region: 5 - 59 Aligned: 55 Modelled: 55 Confidence: 30.4% Identity: 18% PDB header:exocytosis Chain: B: PDB Molecule:syntaxin-1a; PDBTitle: helical extension of the neuronal snare complex into the2 membrane, spacegroup i 21 21 21 Phyre2 PDB 2oc5 chain A domain 1 Region: 119 - 147 Aligned: 29 Modelled: 29 Confidence: 25.6% Identity: 10% Fold: Ferritin-like Superfamily: Ferritin-like Family: PMT1231-like Phyre2 PDB 3lt7 chain D Region: 6 - 36 Aligned: 29 Modelled: 31 Confidence: 20.6% Identity: 34% PDB header:cell adhesion Chain: D: PDB Molecule:adhesin yada; PDBTitle: a transition from strong right-handed to canonical left-handed2 supercoiling in a conserved coiled coil segment of trimeric3 autotransporter adhesins - the m3 mutant structure Phyre2 PDB 2w8a chain C Region: 8 - 133 Aligned: 92 Modelled: 101 Confidence: 19.7% Identity: 14% 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 1v8g chain A domain 1 Region: 90 - 108 Aligned: 19 Modelled: 19 Confidence: 18.0% Identity: 16% Fold: Methionine synthase domain-like Superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Phyre2 PDB 1o17 chain A domain 1 Region: 90 - 108 Aligned: 19 Modelled: 19 Confidence: 17.6% Identity: 32% Fold: Methionine synthase domain-like Superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Phyre2 PDB 1uou chain A domain 1 Region: 90 - 108 Aligned: 19 Modelled: 19 Confidence: 16.6% Identity: 16% Fold: Methionine synthase domain-like Superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Phyre2 PDB 1khd chain A domain 1 Region: 90 - 107 Aligned: 18 Modelled: 18 Confidence: 14.1% Identity: 17% Fold: Methionine synthase domain-like Superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Phyre2 PDB 3izc chain K Region: 5 - 41 Aligned: 37 Modelled: 37 Confidence: 14.0% Identity: 27% PDB header:ribosome Chain: K: PDB Molecule:60s ribosomal protein rpl16 (l13p); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome Phyre2 PDB 2y0f chain D Region: 130 - 187 Aligned: 49 Modelled: 58 Confidence: 13.9% Identity: 27% PDB header:oxidoreductase Chain: D: PDB Molecule:4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; PDBTitle: structure of gcpe (ispg) from thermus thermophilus hb27 Phyre2 PDB 2d0o chain A domain 3 Region: 167 - 186 Aligned: 20 Modelled: 20 Confidence: 13.0% Identity: 35% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: ATPase domain of dehydratase reactivase alpha subunit Phyre2 PDB 1brw chain A domain 1 Region: 90 - 108 Aligned: 19 Modelled: 19 Confidence: 12.8% Identity: 16% Fold: Methionine synthase domain-like Superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Phyre2 PDB 2tpt chain A domain 1 Region: 90 - 108 Aligned: 19 Modelled: 19 Confidence: 11.8% Identity: 16% Fold: Methionine synthase domain-like Superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Phyre2 PDB 2qam chain 3 domain 1 Region: 112 - 125 Aligned: 14 Modelled: 14 Confidence: 11.7% Identity: 36% Fold: L35p-like Superfamily: L35p-like Family: Ribosomal protein L35p Phyre2 PDB 1mug chain A Region: 125 - 156 Aligned: 32 Modelled: 32 Confidence: 11.6% Identity: 16% Fold: Uracil-DNA glycosylase-like Superfamily: Uracil-DNA glycosylase-like Family: Mug-like Phyre2 PDB 1rzs chain A Region: 144 - 168 Aligned: 25 Modelled: 25 Confidence: 10.5% Identity: 24% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Phage repressors Phyre2 PDB 2voy chain G Region: 14 - 51 Aligned: 32 Modelled: 38 Confidence: 10.3% Identity: 28% PDB header:hydrolase Chain: G: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus Phyre2 PDB 2q9q chain F Region: 99 - 145 Aligned: 47 Modelled: 47 Confidence: 10.1% Identity: 17% PDB header:replication Chain: F: PDB Molecule:gins complex subunit 4; PDBTitle: the crystal structure of full length human gins complex Phyre2 PDB 1nbw chain A domain 3 Region: 167 - 185 Aligned: 19 Modelled: 19 Confidence: 9.8% Identity: 37% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: ATPase domain of dehydratase reactivase alpha subunit Phyre2 1 c3fseB_ 2 c3ipdB_ 3 d2oc5a1 4 c3lt7D_ 5 c2w8aC_ 6 d1v8ga1 7 d1o17a1 8 d1uoua1 9 d1khda1 10 c3izck_ 11 c2y0fD_ 12 d2d0oa3 13 d1brwa1 14 d2tpta1 15 d2qam31 16 d1muga_ 17 d1rzsa_ 18 c2voyG_ 19 c2q9qF_ 20 d1nbwa3 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

Detailed template information

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

1 c3fseB_ 63.8 23 PDB header:hydrolase Chain: B: PDB Molecule:two-domain protein containing dj-1/thij/pfpi-like and PDBTitle: crystal structure of a two-domain protein containing dj-1/thij/pfpi-2 like and ferritin-like domains (ava_4496) from anabaena variabilis3 atcc 29413 at 1.90 a resolution 2 c3ipdB_ 30.4 18 PDB header:exocytosis Chain: B: PDB Molecule:syntaxin-1a; PDBTitle: helical extension of the neuronal snare complex into the2 membrane, spacegroup i 21 21 21 3 d2oc5a1 25.6 10 Fold:Ferritin-like Superfamily:Ferritin-like Family:PMT1231-like 4 c3lt7D_ 20.6 34 PDB header:cell adhesion Chain: D: PDB Molecule:adhesin yada; PDBTitle: a transition from strong right-handed to canonical left-handed2 supercoiling in a conserved coiled coil segment of trimeric3 autotransporter adhesins - the m3 mutant structure 5 c2w8aC_ 19.7 14 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 6 d1v8ga1 18.0 16 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 7 d1o17a1 17.6 32 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 8 d1uoua1 16.6 16 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 9 d1khda1 14.1 17 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 10 c3izck_ 14.0 27 PDB header:ribosome Chain: K: PDB Molecule:60s ribosomal protein rpl16 (l13p); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 11 c2y0fD_ 13.9 27 PDB header:oxidoreductase Chain: D: PDB Molecule:4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; PDBTitle: structure of gcpe (ispg) from thermus thermophilus hb27 12 d2d0oa3 13.0 35 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:ATPase domain of dehydratase reactivase alpha subunit 13 d1brwa1 12.8 16 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 14 d2tpta1 11.8 16 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 15 d2qam31 11.7 36 Fold:L35p-like Superfamily:L35p-like Family:Ribosomal protein L35p 16 d1muga_ 11.6 16 Fold:Uracil-DNA glycosylase-like Superfamily:Uracil-DNA glycosylase-like Family:Mug-like 17 d1rzsa_ 10.5 24 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 18 c2voyG_ 10.3 28 PDB header:hydrolase Chain: G: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus 19 c2q9qF_ 10.1 17 PDB header:replication Chain: F: PDB Molecule:gins complex subunit 4; PDBTitle: the crystal structure of full length human gins complex 20 d1nbwa3 9.8 37 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:ATPase domain of dehydratase reactivase alpha subunit 21 c3kdpG_ not modelled 9.3 33 PDB header:hydrolase Chain: G: PDB Molecule:na+/k+ atpase gamma subunit transcript variant a; PDBTitle: crystal structure of the sodium-potassium pump 22 c3kdpH_ not modelled 9.3 33 PDB header:hydrolase Chain: H: PDB Molecule:na+/k+ atpase gamma subunit transcript variant a; PDBTitle: crystal structure of the sodium-potassium pump 23 c4a19Q_ not modelled 8.4 13 PDB header:ribosome Chain: Q: PDB Molecule:60s ribosomal protein l36; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 26s rrna and3 proteins of molecule 2. 24 c3mk7F_ not modelled 8.4 15 PDB header:oxidoreductase Chain: F: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit p; PDBTitle: the structure of cbb3 cytochrome oxidase 25 d1nb9a_ not modelled 8.3 20 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin kinase-like Family:ATP-dependent riboflavin kinase-like 26 c3iz5k_ not modelled 7.7 22 PDB header:ribosome Chain: K: PDB Molecule:60s ribosomal protein l13a (l13p); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 27 d2elca1 not modelled 7.5 17 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 28 d1t3ua_ not modelled 7.5 15 Fold:Cell division protein ZapA-like Superfamily:Cell division protein ZapA-like Family:Cell division protein ZapA-like 29 c2f8sA_ not modelled 7.3 15 PDB header:rna binding protein/rna Chain: A: PDB Molecule:argonaute protein; PDBTitle: crystal structure of aa-ago with externally-bound sirna 30 d2guka1 not modelled 7.0 25 Fold:PG1857-like Superfamily:PG1857-like Family:PG1857-like 31 c2zdjA_ not modelled 6.7 18 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ttma177; PDBTitle: crystal structure of ttma177, a hypothetical protein from2 thermus thermophilus phage tma 32 c1nbwA_ not modelled 6.6 35 PDB header:hydrolase Chain: A: PDB Molecule:glycerol dehydratase reactivase alpha subunit; PDBTitle: glycerol dehydratase reactivase 33 c1khdD_ not modelled 6.6 17 PDB header:transferase Chain: D: PDB Molecule:anthranilate phosphoribosyltransferase; PDBTitle: crystal structure analysis of the anthranilate2 phosphoribosyltransferase from erwinia carotovora at 1.93 resolution (current name, pectobacterium carotovorum) 34 c3p45F_ not modelled 6.5 14 PDB header:hydrolase Chain: F: PDB Molecule:caspase-6; PDBTitle: crystal structure of apo-caspase-6 at physiological ph 35 d1xmec1 not modelled 6.3 24 Fold:Single transmembrane helix Superfamily:Bacterial ba3 type cytochrome c oxidase subunit IIa Family:Bacterial ba3 type cytochrome c oxidase subunit IIa 36 d1tzyc_ not modelled 6.3 15 Fold:Histone-fold Superfamily:Histone-fold Family:Nucleosome core histones 37 c3iuoA_ not modelled 6.2 21 PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent dna helicase recq; PDBTitle: the crystal structure of the c-terminal domain of the atp-dependent2 dna helicase recq from porphyromonas gingivalis to 1.6a 38 c3mmyF_ not modelled 6.2 31 PDB header:nuclear protein Chain: F: PDB Molecule:nuclear pore complex protein nup98; PDBTitle: structural and functional analysis of the interaction between the2 nucleoporin nup98 and the mrna export factor rae1 39 d1f3va_ not modelled 6.1 30 Fold:Ferredoxin-like Superfamily:TRADD, N-terminal domain Family:TRADD, N-terminal domain 40 c1unvA_ not modelled 6.0 30 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 41 c1unvB_ not modelled 5.9 29 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 42 c2ke4A_ not modelled 5.7 15 PDB header:membrane protein Chain: A: PDB Molecule:cdc42-interacting protein 4; PDBTitle: the nmr structure of the tc10 and cdc42 interacting domain2 of cip4 43 c3p56B_ not modelled 5.3 17 PDB header:hydrolase/replication Chain: B: PDB Molecule:ribonuclease h2 subunit b; PDBTitle: the structure of the human rnase h2 complex defines key interaction2 interfaces relevant to enzyme function and human disease 44 c1v8gB_ not modelled 5.3 16 PDB header:transferase Chain: B: PDB Molecule:anthranilate phosphoribosyltransferase; PDBTitle: crystal structure of anthranilate phosphoribosyltransferase2 (trpd) from thermus thermophilus hb8 45 d2v7qi1 not modelled 5.2 57 Fold:Non-globular all-alpha subunits of globular proteins Superfamily:Epsilon subunit of mitochondrial F1F0-ATP synthase Family:Epsilon subunit of mitochondrial F1F0-ATP synthase

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