Secondary structure and disorder prediction

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Sequence		M	S	E	F	D	A	Q	R	V	A	E	R	I	D	I	V	L	D	I	L	V	A	G	D	Y	H	S	A	I	H	N	L	E	I	L	K	A	E	L	L	R	Q	V	A	E	S	T	P	D	I	P	K	A	P	W	E	I
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 1ldd chain A Region: 10 - 46 Aligned: 37 Modelled: 37 Confidence: 48.6% Identity: 24% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: SCF ubiquitin ligase complex WHB domain Phyre2 PDB 1t5l chain A domain 1 Region: 4 - 32 Aligned: 29 Modelled: 29 Confidence: 9.9% Identity: 28% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Tandem AAA-ATPase domain Phyre2 PDB 1y76 chain B domain 1 Region: 11 - 31 Aligned: 21 Modelled: 21 Confidence: 7.9% Identity: 38% Fold: L27 domain Superfamily: L27 domain Family: L27 domain Phyre2 PDB 1jqo chain A Region: 23 - 56 Aligned: 33 Modelled: 34 Confidence: 7.9% Identity: 24% Fold: TIM beta/alpha-barrel Superfamily: Phosphoenolpyruvate/pyruvate domain Family: Phosphoenolpyruvate carboxylase Phyre2 PDB 1jqo chain A Region: 23 - 56 Aligned: 33 Modelled: 34 Confidence: 7.9% Identity: 24% PDB header:lyase Chain: A: PDB Molecule:phosphoenolpyruvate carboxylase; PDBTitle: crystal structure of c4-form phosphoenolpyruvate carboxylase from2 maize Phyre2 PDB 1jqn chain A Region: 23 - 56 Aligned: 33 Modelled: 34 Confidence: 7.2% Identity: 21% Fold: TIM beta/alpha-barrel Superfamily: Phosphoenolpyruvate/pyruvate domain Family: Phosphoenolpyruvate carboxylase Phyre2 PDB 1kyq chain C Region: 6 - 46 Aligned: 41 Modelled: 41 Confidence: 6.4% Identity: 12% PDB header:oxidoreductase, lyase Chain: C: PDB Molecule:siroheme biosynthesis protein met8; PDBTitle: met8p: a bifunctional nad-dependent dehydrogenase and2 ferrochelatase involved in siroheme synthesis. Phyre2 PDB 3ogi chain C Region: 10 - 25 Aligned: 16 Modelled: 16 Confidence: 6.2% Identity: 56% PDB header:structural genomics, unknown function Chain: C: PDB Molecule:putative esat-6-like protein 6; PDBTitle: crystal structure of the mycobacterium tuberculosis h37rv esxop2 complex (rv2346c-rv2347c) Phyre2 PDB 2dex chain X domain 3 Region: 31 - 39 Aligned: 9 Modelled: 9 Confidence: 5.3% Identity: 67% Fold: Pentein, beta/alpha-propeller Superfamily: Pentein Family: Peptidylarginine deiminase Pad4, catalytic C-terminal domain Phyre2 1 d1ldda_ 2 d1t5la1 3 d1y76b1 4 d1jqoa_ 5 c1jqoA_ 6 d1jqna_ 7 c1kyqC_ 8 c3ogiC_ 9 d2dexx3

Detailed template information

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

1 d1ldda_ 48.6 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:SCF ubiquitin ligase complex WHB domain 2 d1t5la1 9.9 28 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Tandem AAA-ATPase domain 3 d1y76b1 7.9 38 Fold:L27 domain Superfamily:L27 domain Family:L27 domain 4 d1jqoa_ 7.9 24 Fold:TIM beta/alpha-barrel Superfamily:Phosphoenolpyruvate/pyruvate domain Family:Phosphoenolpyruvate carboxylase 5 c1jqoA_ 7.9 24 PDB header:lyase Chain: A: PDB Molecule:phosphoenolpyruvate carboxylase; PDBTitle: crystal structure of c4-form phosphoenolpyruvate carboxylase from2 maize 6 d1jqna_ 7.2 21 Fold:TIM beta/alpha-barrel Superfamily:Phosphoenolpyruvate/pyruvate domain Family:Phosphoenolpyruvate carboxylase 7 c1kyqC_ 6.4 12 PDB header:oxidoreductase, lyase Chain: C: PDB Molecule:siroheme biosynthesis protein met8; PDBTitle: met8p: a bifunctional nad-dependent dehydrogenase and2 ferrochelatase involved in siroheme synthesis. 8 c3ogiC_ 6.2 56 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:putative esat-6-like protein 6; PDBTitle: crystal structure of the mycobacterium tuberculosis h37rv esxop2 complex (rv2346c-rv2347c) 9 d2dexx3 5.3 67 Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Peptidylarginine deiminase Pad4, catalytic C-terminal 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

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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