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	S	L	F	L	S	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	R	Q	D	D	V	S	E	E	W	S	Q	V	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																								?	?				?	?						?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	S	S	G	L	T	L	Q	V	L	R	T	R	E	S	P	D	G	C	E	G	G	S	Y	Y	Y	L	V	D	M	E	E	K	T	V	Q	P	L	M	N	A	L	C	I	A	D	N	I	K	L	E	Y	H	E	V	T	D	P	Y	T
Secondary structure
SS confidence
Disorder												?	?		?	?	?	?	?	?																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.
Sequence		K	E	K	Y	F	E	Y	S	H	D	G	K	L	M	G	R	L	L	I	P	S	N	P	D	N	R	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: 40.6% Identity: 14% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 PDB 3fma chain D Region: 54 - 80 Aligned: 26 Modelled: 27 Confidence: 30.5% Identity: 27% 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 3d12 chain E Region: 75 - 114 Aligned: 40 Modelled: 40 Confidence: 24.5% Identity: 18% 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 1iko chain P Region: 75 - 117 Aligned: 43 Modelled: 43 Confidence: 23.4% Identity: 16% Fold: Cupredoxin-like Superfamily: Cupredoxins Family: Ephrin ectodomain Phyre2 PDB 1iko chain P Region: 75 - 117 Aligned: 43 Modelled: 43 Confidence: 23.4% Identity: 16% PDB header:signaling protein Chain: P: PDB Molecule:ephrin-b2; PDBTitle: crystal structure of the murine ephrin-b2 ectodomain Phyre2 PDB 3f1z chain F Region: 82 - 94 Aligned: 13 Modelled: 13 Confidence: 23.1% Identity: 62% 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 2jna chain A domain 1 Region: 80 - 92 Aligned: 13 Modelled: 13 Confidence: 15.2% Identity: 38% Fold: Dodecin subunit-like Superfamily: YdgH-like Family: YdgH-like Phyre2 PDB 2v0x chain B Region: 52 - 60 Aligned: 9 Modelled: 9 Confidence: 14.7% Identity: 56% PDB header:cell cycle Chain: B: PDB Molecule:lamina-associated polypeptide 2 isoforms PDBTitle: the dimerization domain of lap2alpha Phyre2 PDB 1tu2 chain B domain 2 Region: 80 - 93 Aligned: 14 Modelled: 14 Confidence: 13.0% Identity: 50% Fold: Barrel-sandwich hybrid Superfamily: Rudiment single hybrid motif Family: Cytochrome f, small domain Phyre2 PDB 1bg3 chain A domain 3 Region: 73 - 87 Aligned: 15 Modelled: 15 Confidence: 11.8% Identity: 47% 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: 11.8% Identity: 37% Fold: LuxS/MPP-like metallohydrolase Superfamily: LuxS/MPP-like metallohydrolase Family: Autoinducer-2 production protein LuxS Phyre2 PDB 1qfx chain A Region: 18 - 82 Aligned: 65 Modelled: 65 Confidence: 11.7% Identity: 15% Fold: Phosphoglycerate mutase-like Superfamily: Phosphoglycerate mutase-like Family: Histidine acid phosphatase Phyre2 PDB 1x9y chain A domain 2 Region: 77 - 88 Aligned: 12 Modelled: 12 Confidence: 11.4% Identity: 58% Fold: Cystatin-like Superfamily: Cystatin/monellin Family: Staphopain B, prodomain Phyre2 PDB 2ph7 chain B Region: 82 - 99 Aligned: 18 Modelled: 18 Confidence: 10.7% Identity: 33% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein af_2093; PDBTitle: crystal structure of af2093 from archaeoglobus fulgidus Phyre2 PDB 1v4s chain A domain 1 Region: 73 - 87 Aligned: 15 Modelled: 15 Confidence: 10.4% Identity: 40% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 PDB 1cza chain N domain 1 Region: 25 - 87 Aligned: 63 Modelled: 63 Confidence: 10.2% Identity: 25% 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: 9.5% Identity: 22% Fold: Spectrin repeat-like Superfamily: BAG domain Family: BAG domain Phyre2 PDB 1wh2 chain A Region: 54 - 77 Aligned: 23 Modelled: 24 Confidence: 9.2% Identity: 26% Fold: GYF/BRK domain-like Superfamily: GYF domain Family: GYF domain Phyre2 PDB 3zr8 chain X Region: 47 - 74 Aligned: 28 Modelled: 28 Confidence: 8.8% Identity: 25% PDB header:protein binding Chain: X: PDB Molecule:avr3a11; PDBTitle: crystal structure of rxlr effector avr3a11 from phytophthora capsici Phyre2 PDB 1cza chain N domain 3 Region: 28 - 87 Aligned: 60 Modelled: 60 Confidence: 8.4% Identity: 22% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 1 d1ig8a1 2 c3fmaD_ 3 c3d12E_ 4 d1ikop_ 5 c1ikoP_ 6 c3f1zF_ 7 d2jnaa1 8 c2v0xB_ 9 d1tu2b2 10 d1bg3a3 11 d1j6wa_ 12 d1qfxa_ 13 d1x9ya2 14 c2ph7B_ 15 d1v4sa1 16 d1czan1 17 d1m7ka_ 18 d1wh2a_ 19 c3zr8X_ 20 d1czan3 21 22 23 24 25 26 27 28 29 30 31

Detailed template information

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

1 d1ig8a1 40.6 14 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 2 c3fmaD_ 30.5 27 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 3 c3d12E_ 24.5 18 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 4 d1ikop_ 23.4 16 Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Ephrin ectodomain 5 c1ikoP_ 23.4 16 PDB header:signaling protein Chain: P: PDB Molecule:ephrin-b2; PDBTitle: crystal structure of the murine ephrin-b2 ectodomain 6 c3f1zF_ 23.1 62 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 7 d2jnaa1 15.2 38 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 8 c2v0xB_ 14.7 56 PDB header:cell cycle Chain: B: PDB Molecule:lamina-associated polypeptide 2 isoforms PDBTitle: the dimerization domain of lap2alpha 9 d1tu2b2 13.0 50 Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:Cytochrome f, small domain 10 d1bg3a3 11.8 47 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 11 d1j6wa_ 11.8 37 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 12 d1qfxa_ 11.7 15 Fold:Phosphoglycerate mutase-like Superfamily:Phosphoglycerate mutase-like Family:Histidine acid phosphatase 13 d1x9ya2 11.4 58 Fold:Cystatin-like Superfamily:Cystatin/monellin Family:Staphopain B, prodomain 14 c2ph7B_ 10.7 33 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein af_2093; PDBTitle: crystal structure of af2093 from archaeoglobus fulgidus 15 d1v4sa1 10.4 40 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 16 d1czan1 10.2 25 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 17 d1m7ka_ 9.5 22 Fold:Spectrin repeat-like Superfamily:BAG domain Family:BAG domain 18 d1wh2a_ 9.2 26 Fold:GYF/BRK domain-like Superfamily:GYF domain Family:GYF domain 19 c3zr8X_ 8.8 25 PDB header:protein binding Chain: X: PDB Molecule:avr3a11; PDBTitle: crystal structure of rxlr effector avr3a11 from phytophthora capsici 20 d1czan3 8.4 22 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 21 d1j6xa_ not modelled 8.2 22 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 22 c2hacA_ not modelled 7.6 36 PDB header:membrane protein Chain: A: PDB Molecule:t-cell surface glycoprotein cd3 zeta chain; PDBTitle: structure of zeta-zeta transmembrane dimer 23 d2nn6g2 not modelled 7.2 35 Fold:Barrel-sandwich hybrid Superfamily:Ribosomal L27 protein-like Family:ECR1 N-terminal domain-like 24 d1xn7a_ not modelled 7.0 53 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Hypothetical protein YhgG 25 d1wd3a1 not modelled 6.6 33 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Alpha-L-arabinofuranosidase B, N-terminal domain 26 d3b2ua2 not modelled 6.3 71 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Growth factor receptor domain Family:Growth factor receptor domain 27 d1bdga1 not modelled 6.1 33 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 28 d1uhza_ not modelled 5.9 17 Fold:dsRBD-like Superfamily:dsRNA-binding domain-like Family:Double-stranded RNA-binding domain (dsRBD) 29 d2hsga1 not modelled 5.9 14 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 30 c3njqB_ not modelled 5.6 12 PDB header:viral protein/inhibitor Chain: B: PDB Molecule:orf 17; PDBTitle: crystal structure of kaposi's sarcoma-associated herpesvirus protease2 in complex with dimer disruptor 31 d1slqa_ not modelled 5.6 37 Fold:VP4 membrane interaction domain Superfamily:VP4 membrane interaction domain Family:VP4 membrane interaction 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