Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	D	L	N	L	I	P	E	N	C	Q	R	C	E	D	E	E	S	I	T	A	K	A	V	I	P	P	H	P	A	S	S	Y	V	E	T	Y	V	G	R	A	V	P	T	G	Q	Y	R	I	D	R	P	S	G	P	L	T	S	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?							?	?	?	?	?	?	?		?																								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.
Sequence		Y	D	K	G	G	R	L	D	I	A	N	Y	C	T	V	S	L	F
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 3nic chain A Region: 38 - 72 Aligned: 34 Modelled: 35 Confidence: 40.5% Identity: 47% PDB header:hydrolase/dna Chain: A: PDB Molecule:eco29kir; PDBTitle: dna binding and cleavage by the giy-yig endonuclease r.eco29ki2 inactive variant y49f Phyre2 PDB 1xcr chain A domain 1 Region: 48 - 54 Aligned: 7 Modelled: 7 Confidence: 13.8% Identity: 71% Fold: AF0104/ALDC/Ptd012-like Superfamily: AF0104/ALDC/Ptd012-like Family: PTD012-like Phyre2 PDB 1q1r chain A domain 3 Region: 38 - 67 Aligned: 30 Modelled: 30 Confidence: 9.1% Identity: 20% Fold: CO dehydrogenase flavoprotein C-domain-like Superfamily: FAD/NAD-linked reductases, dimerisation (C-terminal) domain Family: FAD/NAD-linked reductases, dimerisation (C-terminal) domain Phyre2 1 c3nicA_ 2 d1xcra1 3 d1q1ra3

Detailed template information

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

1 c3nicA_ 40.5 47 PDB header:hydrolase/dna Chain: A: PDB Molecule:eco29kir; PDBTitle: dna binding and cleavage by the giy-yig endonuclease r.eco29ki2 inactive variant y49f 2 d1xcra1 13.8 71 Fold:AF0104/ALDC/Ptd012-like Superfamily:AF0104/ALDC/Ptd012-like Family:PTD012-like 3 d1q1ra3 9.1 20 Fold:CO dehydrogenase flavoprotein C-domain-like Superfamily:FAD/NAD-linked reductases, dimerisation (C-terminal) domain Family:FAD/NAD-linked reductases, dimerisation (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