Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	P	D	Y	L	T	F	I	R	F	Q	D	K	R	N	L	I	Y	I	Y	A	I	G	L	I	L	I	G	F	Y	W	K	N	A	G	F	T	F	P	S	E	D	I	G	V	V	S	G	I	L	A	L	V	L	Y	N	F	I	F
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		D	L	K	A	Y	W	A	Y	K	C	V	T	K	N	I	D	F	S	W	F	K	K	K	Q	N	H	K	I	E	L	F	L	T	Q	P	L	V	A	G	F	L	S	L	I	M	L	S	A	M	S	W	G	L	Y	Q	L	L	P	S	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		Y	A	L	F	L	I	S	L	L	G	P	L	V	I	F	L	L	F	R	M	I	R	T	S	Y	V	K	Q	V	A	I	S	V	A	K	K	V	K	Y	K	S	L	T	R	Y	V	L	L	S	V	C	I	S	T	V	V	N	L	L	T
Secondary structure
SS confidence
Disorder																																		?																											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		I	S	P	L	R	N	S	D	S	F	V	T	E	G	Q	W	L	T	F	K	S	I	I	A	L	L	I	L	C	G	V	V	L	A	I	N	L	F	F	L	R	F	S	K	R	Y	A	F	L	G	R	L	F	L	Q	E	I	D	L	F
Secondary structure
SS confidence
Disorder		?	?					?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		F	S	S	E	N	A	L	S	T	F	F	A	K	P	L	W	L	R	L	F	I	L	L	V	I	E	V	M	W	I	T	L	V	S	V	L	A	T	L	V	E	W	R	I	W	F	E	A	Y	F	L	L	C	Y	V	P	C	L	I	Y
Secondary structure
SS confidence
Disorder								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.
Sequence		Y	F	F	Y	C	R	F	L	W	H	N	D	F	M	M	A	C	D	M	Y	F	R	W	G	H	F	N	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 1vzm chain B Region: 315 - 319 Aligned: 5 Modelled: 5 Confidence: 19.7% Identity: 100% PDB header:calcium-binding protein Chain: B: PDB Molecule:osteocalcin; PDBTitle: osteocalcin from fish argyrosomus regius Phyre2 PDB 2cqk chain A domain 1 Region: 229 - 245 Aligned: 17 Modelled: 17 Confidence: 17.9% Identity: 29% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: La domain Phyre2 PDB 1zh5 chain A domain 1 Region: 229 - 253 Aligned: 25 Modelled: 25 Confidence: 15.4% Identity: 24% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: La domain Phyre2 PDB 3pf6 chain C Region: 310 - 320 Aligned: 11 Modelled: 7 Confidence: 13.0% Identity: 45% PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hypothetical protein pp-luz7_gp033; PDBTitle: the structure of uncharacterized protein pp-luz7_gp033 from2 pseudomonas phage luz7. Phyre2 PDB 2k0b chain X domain 1 Region: 190 - 198 Aligned: 9 Modelled: 9 Confidence: 12.7% Identity: 67% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 2nrq chain A domain 1 Region: 218 - 238 Aligned: 21 Modelled: 21 Confidence: 12.7% Identity: 48% Fold: RL5-like Superfamily: RL5-like Family: SSO1042-like Phyre2 PDB 1s29 chain A Region: 229 - 253 Aligned: 25 Modelled: 25 Confidence: 12.0% Identity: 20% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: La domain Phyre2 PDB 2qnl chain A Region: 59 - 95 Aligned: 37 Modelled: 37 Confidence: 11.7% Identity: 32% PDB header:signaling protein Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a putative dna damage-inducible protein2 (chu_0679) from cytophaga hutchinsonii atcc 33406 at 1.50 a3 resolution Phyre2 PDB 1rzh chain H domain 1 Region: 174 - 195 Aligned: 22 Modelled: 22 Confidence: 10.5% Identity: 14% Fold: PRC-barrel domain Superfamily: PRC-barrel domain Family: Photosynthetic reaction centre, H-chain, cytoplasmic domain Phyre2 PDB 2i6h chain A Region: 219 - 231 Aligned: 13 Modelled: 13 Confidence: 10.3% Identity: 46% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein atu0120; PDBTitle: structure of protein of unknown function atu0120 from agrobacterium2 tumefaciens Phyre2 PDB 2i6h chain A domain 1 Region: 219 - 231 Aligned: 13 Modelled: 13 Confidence: 10.3% Identity: 46% Fold: alpha-alpha superhelix Superfamily: TPR-like Family: Atu0120-like Phyre2 PDB 2r48 chain A domain 1 Region: 73 - 84 Aligned: 12 Modelled: 12 Confidence: 10.0% Identity: 17% Fold: Phosphotyrosine protein phosphatases I-like Superfamily: PTS system IIB component-like Family: PTS system, Fructose specific IIB subunit-like Phyre2 PDB 2r4q chain A domain 1 Region: 73 - 84 Aligned: 12 Modelled: 11 Confidence: 9.7% Identity: 33% Fold: Phosphotyrosine protein phosphatases I-like Superfamily: PTS system IIB component-like Family: PTS system, Fructose specific IIB subunit-like Phyre2 PDB 2k1a chain A Region: 268 - 280 Aligned: 13 Modelled: 13 Confidence: 8.7% Identity: 46% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment Phyre2 PDB 1hf8 chain A domain 1 Region: 84 - 138 Aligned: 55 Modelled: 55 Confidence: 8.7% Identity: 20% Fold: Spectrin repeat-like Superfamily: GAT-like domain Family: Phosphoinositide-binding clathrin adaptor, domain 2 Phyre2 PDB 1dfm chain A Region: 223 - 257 Aligned: 31 Modelled: 35 Confidence: 8.4% Identity: 32% Fold: Restriction endonuclease-like Superfamily: Restriction endonuclease-like Family: Restriction endonuclease BglII Phyre2 PDB 2knc chain A Region: 268 - 280 Aligned: 13 Modelled: 13 Confidence: 7.8% Identity: 46% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2jdi chain D domain 1 Region: 76 - 95 Aligned: 20 Modelled: 20 Confidence: 7.6% Identity: 30% Fold: Left-handed superhelix Superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase Family: C-terminal domain of alpha and beta subunits of F1 ATP synthase Phyre2 PDB 2i5n chain H Region: 174 - 195 Aligned: 22 Modelled: 22 Confidence: 7.5% Identity: 32% PDB header:photosynthesis Chain: H: PDB Molecule:reaction center protein h chain; PDBTitle: 1.96 a x-ray structure of photosynthetic reaction center from2 rhodopseudomonas viridis:crystals grown by microfluidic technique Phyre2 PDB 2gic chain A domain 1 Region: 209 - 224 Aligned: 16 Modelled: 16 Confidence: 7.4% Identity: 38% Fold: Rhabdovirus nucleoprotein-like Superfamily: Rhabdovirus nucleoprotein-like Family: Rhabdovirus nucleocapsid protein Phyre2 1 c1vzmB_ 2 d2cqka1 3 d1zh5a1 4 c3pf6C_ 5 d2k0bx1 6 d2nrqa1 7 d1s29a_ 8 c2qnlA_ 9 d1rzhh1 10 c2i6hA_ 11 d2i6ha1 12 d2r48a1 13 d2r4qa1 14 c2k1aA_ 15 d1hf8a1 16 d1dfma_ 17 c2kncA_ 18 d2jdid1 19 c2i5nH_ 20 d2gica1 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42

Detailed template information

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

1 c1vzmB_ 19.7 100 PDB header:calcium-binding protein Chain: B: PDB Molecule:osteocalcin; PDBTitle: osteocalcin from fish argyrosomus regius 2 d2cqka1 17.9 29 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:La domain 3 d1zh5a1 15.4 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:La domain 4 c3pf6C_ 13.0 45 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hypothetical protein pp-luz7_gp033; PDBTitle: the structure of uncharacterized protein pp-luz7_gp033 from2 pseudomonas phage luz7. 5 d2k0bx1 12.7 67 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 6 d2nrqa1 12.7 48 Fold:RL5-like Superfamily:RL5-like Family:SSO1042-like 7 d1s29a_ 12.0 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:La domain 8 c2qnlA_ 11.7 32 PDB header:signaling protein Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a putative dna damage-inducible protein2 (chu_0679) from cytophaga hutchinsonii atcc 33406 at 1.50 a3 resolution 9 d1rzhh1 10.5 14 Fold:PRC-barrel domain Superfamily:PRC-barrel domain Family:Photosynthetic reaction centre, H-chain, cytoplasmic domain 10 c2i6hA_ 10.3 46 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein atu0120; PDBTitle: structure of protein of unknown function atu0120 from agrobacterium2 tumefaciens 11 d2i6ha1 10.3 46 Fold:alpha-alpha superhelix Superfamily:TPR-like Family:Atu0120-like 12 d2r48a1 10.0 17 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:PTS system IIB component-like Family:PTS system, Fructose specific IIB subunit-like 13 d2r4qa1 9.7 33 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:PTS system IIB component-like Family:PTS system, Fructose specific IIB subunit-like 14 c2k1aA_ 8.7 46 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment 15 d1hf8a1 8.7 20 Fold:Spectrin repeat-like Superfamily:GAT-like domain Family:Phosphoinositide-binding clathrin adaptor, domain 2 16 d1dfma_ 8.4 32 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Restriction endonuclease BglII 17 c2kncA_ 7.8 46 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 18 d2jdid1 7.6 30 Fold:Left-handed superhelix Superfamily:C-terminal domain of alpha and beta subunits of F1 ATP synthase Family:C-terminal domain of alpha and beta subunits of F1 ATP synthase 19 c2i5nH_ 7.5 32 PDB header:photosynthesis Chain: H: PDB Molecule:reaction center protein h chain; PDBTitle: 1.96 a x-ray structure of photosynthetic reaction center from2 rhodopseudomonas viridis:crystals grown by microfluidic technique 20 d2gica1 7.4 38 Fold:Rhabdovirus nucleoprotein-like Superfamily:Rhabdovirus nucleoprotein-like Family:Rhabdovirus nucleocapsid protein 21 c3izxE_ not modelled 7.2 23 PDB header:virus Chain: E: PDB Molecule:viral structural protein 5; PDBTitle: 3.1 angstrom cryoem structure of cytoplasmic polyhedrosis virus 22 c1eysH_ not modelled 7.2 25 PDB header:electron transport Chain: H: PDB Molecule:photosynthetic reaction center; PDBTitle: crystal structure of photosynthetic reaction center from a2 thermophilic bacterium, thermochromatium tepidum 23 d2ogka1 not modelled 7.2 29 Fold:RL5-like Superfamily:RL5-like Family:SSO1042-like 24 d1hx8a1 not modelled 7.0 15 Fold:Spectrin repeat-like Superfamily:GAT-like domain Family:Phosphoinositide-binding clathrin adaptor, domain 2 25 c3e5aB_ not modelled 6.8 69 PDB header:transferase Chain: B: PDB Molecule:targeting protein for xklp2; PDBTitle: crystal structure of aurora a in complex with vx-680 and tpx2 26 c2ks1B_ not modelled 6.8 56 PDB header:transferase Chain: B: PDB Molecule:epidermal growth factor receptor; PDBTitle: heterodimeric association of transmembrane domains of erbb1 and erbb22 receptors enabling kinase activation 27 d1lghb_ not modelled 6.7 60 Fold:Light-harvesting complex subunits Superfamily:Light-harvesting complex subunits Family:Light-harvesting complex subunits 28 c3lpzA_ not modelled 6.4 16 PDB header:protein transport Chain: A: PDB Molecule:get4 (yor164c homolog); PDBTitle: crystal structure of c. therm. get4 29 c2xvoB_ not modelled 5.7 47 PDB header:structural genomics Chain: B: PDB Molecule:sso1725; PDBTitle: sso1725, a protein involved in the crispr/cas pathway 30 d1e6yb2 not modelled 5.7 31 Fold:Ferredoxin-like Superfamily:Methyl-coenzyme M reductase subunits Family:Methyl-coenzyme M reductase alpha and beta chain N-terminal domain 31 c1ponB_ not modelled 5.7 50 PDB header:calcium-binding protein Chain: B: PDB Molecule:troponin c; PDBTitle: site iii-site iv troponin c heterodimer, nmr 32 c3pryA_ not modelled 5.7 70 PDB header:chaperone Chain: A: PDB Molecule:heat shock protein hsp 90-beta; PDBTitle: crystal structure of the middle domain of human hsp90-beta refined at2 2.3 a resolution 33 c2pqlA_ not modelled 5.7 40 PDB header:transport protein Chain: A: PDB Molecule:d7r4 protein; PDBTitle: crystal structure of anopheles gambiae d7r4-tryptamine complex 34 d1qkya_ not modelled 5.6 80 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Scorpion toxin-like Family:Short-chain scorpion toxins 35 c2wnyB_ not modelled 5.6 43 PDB header:unknown function Chain: B: PDB Molecule:conserved protein mth689; PDBTitle: structure of mth689, a duf54 protein from methanothermobacter2 thermautotrophicus 36 d1h5wa_ not modelled 5.6 18 Fold:Upper collar protein gp10 (connector protein) Superfamily:Upper collar protein gp10 (connector protein) Family:Upper collar protein gp10 (connector protein) 37 c2nr1A_ not modelled 5.4 57 PDB header:receptor Chain: A: PDB Molecule:nr1 m2; PDBTitle: transmembrane segment 2 of nmda receptor nr1, nmr, 102 structures 38 c1y6zA_ not modelled 5.4 60 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:heat shock protein, putative; PDBTitle: middle domain of plasmodium falciparum putative heat shock protein2 pf14_0417 39 d2v7qi1 not modelled 5.4 44 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 40 d1q90g_ not modelled 5.3 56 Fold:Single transmembrane helix Superfamily:PetG subunit of the cytochrome b6f complex Family:PetG subunit of the cytochrome b6f complex 41 c1q90G_ not modelled 5.3 56 PDB header:photosynthesis Chain: G: PDB Molecule:cytochrome b6f complex subunit petg; PDBTitle: structure of the cytochrome b6f (plastohydroquinone : plastocyanin2 oxidoreductase) from chlamydomonas reinhardtii 42 d3d85d2 not modelled 5.1 38 Fold:Immunoglobulin-like beta-sandwich Superfamily:Fibronectin type III Family:Fibronectin type III

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