Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	C	E	T	K	Q	R	T	Q	F	E	C	I	Y	F	S	Q	Y	W	A	K	G	D	F	I	A	K	R	A	P	I	G	Q	W	E	P	Y	S	E	E	S	L	L	G	I	I	V	T	S	V	C	R	I	K	V	A	M	L	K
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																				?	?						?																				?					?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.
Sequence		P	E	P	P	R	D	P	H	I	P	L	M	G	D	F	N
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 2yug chain A Region: 21 - 38 Aligned: 18 Modelled: 18 Confidence: 14.3% Identity: 22% PDB header:gene regulation Chain: A: PDB Molecule:protein frg1; PDBTitle: solution structure of mouse frg1 protein Phyre2 PDB 1dfc chain A domain 3 Region: 24 - 38 Aligned: 15 Modelled: 15 Confidence: 12.9% Identity: 20% Fold: beta-Trefoil Superfamily: Actin-crosslinking proteins Family: Fascin Phyre2 PDB 1ecf chain A domain 1 Region: 10 - 19 Aligned: 10 Modelled: 10 Confidence: 11.9% Identity: 40% Fold: PRTase-like Superfamily: PRTase-like Family: Phosphoribosyltransferases (PRTases) Phyre2 PDB 1ecj chain B Region: 10 - 19 Aligned: 10 Modelled: 10 Confidence: 11.1% Identity: 40% PDB header:transferase Chain: B: PDB Molecule:glutamine phosphoribosylpyrophosphate PDBTitle: escherichia coli glutamine phosphoribosylpyrophosphate2 (prpp) amidotransferase complexed with 2 amp per tetramer Phyre2 PDB 3soo chain B Region: 24 - 35 Aligned: 12 Modelled: 12 Confidence: 10.9% Identity: 33% PDB header:rna binding protein Chain: B: PDB Molecule:line-1 type transposase domain-containing protein 1; PDBTitle: crystal structure of a line-1 type transposase domain-containing2 protein 1 (l1td1) from homo sapiens at 2.73 a resolution Phyre2 PDB 1cgm chain E Region: 14 - 70 Aligned: 53 Modelled: 57 Confidence: 10.7% Identity: 11% Fold: Four-helical up-and-down bundle Superfamily: TMV-like viral coat proteins Family: TMV-like viral coat proteins Phyre2 PDB 1gph chain 1 domain 1 Region: 10 - 19 Aligned: 10 Modelled: 10 Confidence: 9.8% Identity: 50% Fold: PRTase-like Superfamily: PRTase-like Family: Phosphoribosyltransferases (PRTases) Phyre2 PDB 1c0m chain A domain 1 Region: 22 - 36 Aligned: 15 Modelled: 15 Confidence: 9.6% Identity: 33% Fold: SH3-like barrel Superfamily: DNA-binding domain of retroviral integrase Family: DNA-binding domain of retroviral integrase Phyre2 PDB 1gph chain 1 Region: 10 - 19 Aligned: 10 Modelled: 10 Confidence: 9.5% Identity: 50% PDB header:transferase(glutamine amidotransferase) Chain: 1: PDB Molecule:glutamine phosphoribosyl-pyrophosphate amidotransferase; PDBTitle: structure of the allosteric regulatory enzyme of purine biosynthesis Phyre2 PDB 2vv5 chain A domain 1 Region: 14 - 34 Aligned: 21 Modelled: 21 Confidence: 9.4% Identity: 10% Fold: Sm-like fold Superfamily: Sm-like ribonucleoproteins Family: Mechanosensitive channel protein MscS (YggB), middle domain Phyre2 PDB 1dfc chain A domain 1 Region: 23 - 38 Aligned: 16 Modelled: 16 Confidence: 8.5% Identity: 19% Fold: beta-Trefoil Superfamily: Actin-crosslinking proteins Family: Fascin Phyre2 PDB 1dfc chain A domain 2 Region: 21 - 38 Aligned: 18 Modelled: 18 Confidence: 7.5% Identity: 22% Fold: beta-Trefoil Superfamily: Actin-crosslinking proteins Family: Fascin Phyre2 PDB 3aqb chain C Region: 15 - 25 Aligned: 11 Modelled: 11 Confidence: 6.2% Identity: 45% PDB header:transferase Chain: C: PDB Molecule:component a of hexaprenyl diphosphate synthase; PDBTitle: m. luteus b-p 26 heterodimeric hexaprenyl diphosphate synthase in2 complex with magnesium Phyre2 PDB 2w0c chain C Region: 14 - 38 Aligned: 22 Modelled: 25 Confidence: 5.8% Identity: 18% PDB header:virus Chain: C: PDB Molecule:major capsid protein p2; PDBTitle: x-ray structure of the entire lipid-containing2 bacteriophage pm2 Phyre2 PDB 1qop chain A Region: 16 - 50 Aligned: 35 Modelled: 35 Confidence: 5.6% Identity: 14% Fold: TIM beta/alpha-barrel Superfamily: Ribulose-phoshate binding barrel Family: Tryptophan biosynthesis enzymes Phyre2 PDB 3nav chain B Region: 16 - 50 Aligned: 35 Modelled: 35 Confidence: 5.6% Identity: 17% PDB header:lyase Chain: B: PDB Molecule:tryptophan synthase alpha chain; PDBTitle: crystal structure of an alpha subunit of tryptophan synthase from2 vibrio cholerae o1 biovar el tor str. n16961 Phyre2 PDB 2ekc chain A Region: 16 - 50 Aligned: 35 Modelled: 35 Confidence: 5.5% Identity: 23% PDB header:lyase Chain: A: PDB Molecule:tryptophan synthase alpha chain; PDBTitle: structural study of project id aq_1548 from aquifex aeolicus vf5 Phyre2 1 c2yugA_ 2 d1dfca3 3 d1ecfa1 4 c1ecjB_ 5 c3sooB_ 6 d1cgme_ 7 d1gph11 8 d1c0ma1 9 c1gph1_ 10 d2vv5a1 11 d1dfca1 12 d1dfca2 13 c3aqbC_ 14 c2w0cC_ 15 d1qopa_ 16 c3navB_ 17 c2ekcA_

Detailed template information

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

1 c2yugA_ 14.3 22 PDB header:gene regulation Chain: A: PDB Molecule:protein frg1; PDBTitle: solution structure of mouse frg1 protein 2 d1dfca3 12.9 20 Fold:beta-Trefoil Superfamily:Actin-crosslinking proteins Family:Fascin 3 d1ecfa1 11.9 40 Fold:PRTase-like Superfamily:PRTase-like Family:Phosphoribosyltransferases (PRTases) 4 c1ecjB_ 11.1 40 PDB header:transferase Chain: B: PDB Molecule:glutamine phosphoribosylpyrophosphate PDBTitle: escherichia coli glutamine phosphoribosylpyrophosphate2 (prpp) amidotransferase complexed with 2 amp per tetramer 5 c3sooB_ 10.9 33 PDB header:rna binding protein Chain: B: PDB Molecule:line-1 type transposase domain-containing protein 1; PDBTitle: crystal structure of a line-1 type transposase domain-containing2 protein 1 (l1td1) from homo sapiens at 2.73 a resolution 6 d1cgme_ 10.7 11 Fold:Four-helical up-and-down bundle Superfamily:TMV-like viral coat proteins Family:TMV-like viral coat proteins 7 d1gph11 9.8 50 Fold:PRTase-like Superfamily:PRTase-like Family:Phosphoribosyltransferases (PRTases) 8 d1c0ma1 9.6 33 Fold:SH3-like barrel Superfamily:DNA-binding domain of retroviral integrase Family:DNA-binding domain of retroviral integrase 9 c1gph1_ 9.5 50 PDB header:transferase(glutamine amidotransferase) Chain: 1: PDB Molecule:glutamine phosphoribosyl-pyrophosphate amidotransferase; PDBTitle: structure of the allosteric regulatory enzyme of purine biosynthesis 10 d2vv5a1 9.4 10 Fold:Sm-like fold Superfamily:Sm-like ribonucleoproteins Family:Mechanosensitive channel protein MscS (YggB), middle domain 11 d1dfca1 8.5 19 Fold:beta-Trefoil Superfamily:Actin-crosslinking proteins Family:Fascin 12 d1dfca2 7.5 22 Fold:beta-Trefoil Superfamily:Actin-crosslinking proteins Family:Fascin 13 c3aqbC_ 6.2 45 PDB header:transferase Chain: C: PDB Molecule:component a of hexaprenyl diphosphate synthase; PDBTitle: m. luteus b-p 26 heterodimeric hexaprenyl diphosphate synthase in2 complex with magnesium 14 c2w0cC_ 5.8 18 PDB header:virus Chain: C: PDB Molecule:major capsid protein p2; PDBTitle: x-ray structure of the entire lipid-containing2 bacteriophage pm2 15 d1qopa_ 5.6 14 Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Tryptophan biosynthesis enzymes 16 c3navB_ 5.6 17 PDB header:lyase Chain: B: PDB Molecule:tryptophan synthase alpha chain; PDBTitle: crystal structure of an alpha subunit of tryptophan synthase from2 vibrio cholerae o1 biovar el tor str. n16961 17 c2ekcA_ 5.5 23 PDB header:lyase Chain: A: PDB Molecule:tryptophan synthase alpha chain; PDBTitle: structural study of project id aq_1548 from aquifex aeolicus vf5

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