Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	R	K	T	L	P	L	L	A	L	V	A	T	T	L	F	L	I	A	C	D	D	R	S	D	D	L	K	A	I	S	K	F	K	D	L	T	P	P	R	F	S	D	V	V	S	H	Q	D	D	V	S	E	E	W	S	Q	V	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																								?	?				?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Y	L	S	G	P	T	L	Q	V	L	R	T	R	Q	S	P	D	G	C	E	D	G	S	Y	Y	Y	L	V	D	M	Q	E	K	T	V	Q	P	L	M	N	A	L	C	I	A	D	N	I	K	L	E	Y	Q	E	V	T	D	P	Y	T
Secondary structure
SS confidence
Disorder												?	?		?	?	?	?	?	?																									?												?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.
Sequence		K	E	K	Y	F	E	Y	A	H	D	G	K	L	M	G	Q	L	L	I	P	S	N	P	D	N	Q	E
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 1ig8 chain A domain 1 Region: 22 - 87 Aligned: 66 Modelled: 66 Confidence: 32.1% Identity: 14% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 PDB 3f1z chain F Region: 82 - 94 Aligned: 13 Modelled: 13 Confidence: 23.2% Identity: 69% PDB header:dna binding protein Chain: F: PDB Molecule:putative nucleic acid-binding lipoprotein; PDBTitle: crystal structure of putative nucleic acid-binding lipoprotein2 (yp_001337197.1) from klebsiella pneumoniae subsp. pneumoniae mgh3 78578 at 2.46 a resolution Phyre2 PDB 1tu2 chain B domain 2 Region: 80 - 93 Aligned: 14 Modelled: 14 Confidence: 14.2% Identity: 57% Fold: Barrel-sandwich hybrid Superfamily: Rudiment single hybrid motif Family: Cytochrome f, small domain Phyre2 PDB 1iko chain P Region: 83 - 117 Aligned: 35 Modelled: 35 Confidence: 13.4% Identity: 14% Fold: Cupredoxin-like Superfamily: Cupredoxins Family: Ephrin ectodomain Phyre2 PDB 1iko chain P Region: 83 - 117 Aligned: 35 Modelled: 35 Confidence: 13.4% Identity: 14% PDB header:signaling protein Chain: P: PDB Molecule:ephrin-b2; PDBTitle: crystal structure of the murine ephrin-b2 ectodomain Phyre2 PDB 3d12 chain E Region: 83 - 114 Aligned: 32 Modelled: 32 Confidence: 13.2% Identity: 16% PDB header:hydrolase/membrane protein Chain: E: PDB Molecule:ephrin-b3; PDBTitle: crystal structures of nipah virus g attachment glycoprotein in complex2 with its receptor ephrin-b3 Phyre2 PDB 1x9y chain A domain 2 Region: 77 - 88 Aligned: 12 Modelled: 12 Confidence: 12.9% Identity: 67% Fold: Cystatin-like Superfamily: Cystatin/monellin Family: Staphopain B, prodomain Phyre2 PDB 2v0x chain B Region: 52 - 60 Aligned: 9 Modelled: 9 Confidence: 10.9% Identity: 67% PDB header:cell cycle Chain: B: PDB Molecule:lamina-associated polypeptide 2 isoforms PDBTitle: the dimerization domain of lap2alpha Phyre2 PDB 1bg3 chain A domain 3 Region: 73 - 87 Aligned: 15 Modelled: 15 Confidence: 9.6% Identity: 47% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 PDB 1m7k chain A Region: 38 - 64 Aligned: 27 Modelled: 27 Confidence: 9.0% Identity: 22% Fold: Spectrin repeat-like Superfamily: BAG domain Family: BAG domain Phyre2 PDB 1v4s chain A domain 1 Region: 73 - 87 Aligned: 15 Modelled: 15 Confidence: 8.8% Identity: 40% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 PDB 1j6w chain A Region: 75 - 101 Aligned: 27 Modelled: 27 Confidence: 8.4% Identity: 37% Fold: LuxS/MPP-like metallohydrolase Superfamily: LuxS/MPP-like metallohydrolase Family: Autoinducer-2 production protein LuxS Phyre2 PDB 1uhz chain A Region: 54 - 76 Aligned: 23 Modelled: 23 Confidence: 8.4% Identity: 22% Fold: dsRBD-like Superfamily: dsRNA-binding domain-like Family: Double-stranded RNA-binding domain (dsRBD) Phyre2 PDB 1cza chain N domain 3 Region: 74 - 87 Aligned: 14 Modelled: 14 Confidence: 8.1% Identity: 43% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 PDB 2ilk chain A Region: 33 - 79 Aligned: 47 Modelled: 47 Confidence: 8.0% Identity: 21% Fold: 4-helical cytokines Superfamily: 4-helical cytokines Family: Interferons/interleukin-10 (IL-10) Phyre2 PDB 1cza chain N domain 1 Region: 25 - 87 Aligned: 63 Modelled: 63 Confidence: 7.8% Identity: 25% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 PDB 2nn6 chain G domain 2 Region: 71 - 93 Aligned: 23 Modelled: 23 Confidence: 7.6% Identity: 39% Fold: Barrel-sandwich hybrid Superfamily: Ribosomal L27 protein-like Family: ECR1 N-terminal domain-like Phyre2 PDB 3fma chain D Region: 54 - 94 Aligned: 40 Modelled: 37 Confidence: 6.8% Identity: 23% PDB header:protein binding Chain: D: PDB Molecule:protein smy2; PDBTitle: crystal structure of the gyf domain of smy2 in complex with a proline-2 rich peptide from bbp/scsf1 Phyre2 PDB 3b2u chain A domain 2 Region: 75 - 79 Aligned: 5 Modelled: 5 Confidence: 6.6% Identity: 80% Fold: Knottins (small inhibitors, toxins, lectins) Superfamily: Growth factor receptor domain Family: Growth factor receptor domain Phyre2 PDB 2pbk chain A domain 1 Region: 30 - 72 Aligned: 43 Modelled: 43 Confidence: 6.4% Identity: 12% Fold: Herpes virus serine proteinase, assemblin Superfamily: Herpes virus serine proteinase, assemblin Family: Herpes virus serine proteinase, assemblin Phyre2 1 d1ig8a1 2 c3f1zF_ 3 d1tu2b2 4 d1ikop_ 5 c1ikoP_ 6 c3d12E_ 7 d1x9ya2 8 c2v0xB_ 9 d1bg3a3 10 d1m7ka_ 11 d1v4sa1 12 d1j6wa_ 13 d1uhza_ 14 d1czan3 15 d2ilka_ 16 d1czan1 17 d2nn6g2 18 c3fmaD_ 19 d3b2ua2 20 d2pbka1 21 22 23 24 25

Detailed template information

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

1 d1ig8a1 32.1 14 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 2 c3f1zF_ 23.2 69 PDB header:dna binding protein Chain: F: PDB Molecule:putative nucleic acid-binding lipoprotein; PDBTitle: crystal structure of putative nucleic acid-binding lipoprotein2 (yp_001337197.1) from klebsiella pneumoniae subsp. pneumoniae mgh3 78578 at 2.46 a resolution 3 d1tu2b2 14.2 57 Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:Cytochrome f, small domain 4 d1ikop_ 13.4 14 Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Ephrin ectodomain 5 c1ikoP_ 13.4 14 PDB header:signaling protein Chain: P: PDB Molecule:ephrin-b2; PDBTitle: crystal structure of the murine ephrin-b2 ectodomain 6 c3d12E_ 13.2 16 PDB header:hydrolase/membrane protein Chain: E: PDB Molecule:ephrin-b3; PDBTitle: crystal structures of nipah virus g attachment glycoprotein in complex2 with its receptor ephrin-b3 7 d1x9ya2 12.9 67 Fold:Cystatin-like Superfamily:Cystatin/monellin Family:Staphopain B, prodomain 8 c2v0xB_ 10.9 67 PDB header:cell cycle Chain: B: PDB Molecule:lamina-associated polypeptide 2 isoforms PDBTitle: the dimerization domain of lap2alpha 9 d1bg3a3 9.6 47 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 10 d1m7ka_ 9.0 22 Fold:Spectrin repeat-like Superfamily:BAG domain Family:BAG domain 11 d1v4sa1 8.8 40 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 12 d1j6wa_ 8.4 37 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 13 d1uhza_ 8.4 22 Fold:dsRBD-like Superfamily:dsRNA-binding domain-like Family:Double-stranded RNA-binding domain (dsRBD) 14 d1czan3 8.1 43 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 15 d2ilka_ 8.0 21 Fold:4-helical cytokines Superfamily:4-helical cytokines Family:Interferons/interleukin-10 (IL-10) 16 d1czan1 7.8 25 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 17 d2nn6g2 7.6 39 Fold:Barrel-sandwich hybrid Superfamily:Ribosomal L27 protein-like Family:ECR1 N-terminal domain-like 18 c3fmaD_ 6.8 23 PDB header:protein binding Chain: D: PDB Molecule:protein smy2; PDBTitle: crystal structure of the gyf domain of smy2 in complex with a proline-2 rich peptide from bbp/scsf1 19 d3b2ua2 6.6 80 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Growth factor receptor domain Family:Growth factor receptor domain 20 d2pbka1 6.4 12 Fold:Herpes virus serine proteinase, assemblin Superfamily:Herpes virus serine proteinase, assemblin Family:Herpes virus serine proteinase, assemblin 21 d1j6xa_ not modelled 6.4 22 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 22 d1y74b1 not modelled 6.1 42 Fold:L27 domain Superfamily:L27 domain Family:L27 domain 23 c3adjA_ not modelled 6.1 17 PDB header:gene regulation Chain: A: PDB Molecule:f21m12.9 protein; PDBTitle: structure of arabidopsis hyl1 and its molecular implications for mirna2 processing 24 c2wa0A_ not modelled 6.0 18 PDB header:immune system Chain: A: PDB Molecule:melanoma-associated antigen 4; PDBTitle: crystal structure of the human magea4 25 c2kpeB_ not modelled 5.2 35 PDB header:membrane protein Chain: B: PDB Molecule:glycophorin-a; PDBTitle: refined structure of glycophorin a transmembrane segment dimer in dpc2 micelles

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