Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	K	Y	C	E	L	I	R	K	R	Y	A	E	I	A	S	G	D	L	G	Y	V	P	D	A	L	G	C	V	L	K	V	L	N	E	M	A	A	D	D	A	L	S	E	A	V	R	E	K	A	A	Y	A	A	A	N	L	L	V
Secondary structure
SS confidence
Disorder		?																																					?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.
Sequence		S	D	Y	V	N	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 2qsb chain A domain 1 Region: 25 - 59 Aligned: 35 Modelled: 35 Confidence: 57.9% Identity: 26% Fold: Bromodomain-like Superfamily: Ta0600-like Family: Ta0600-like Phyre2 PDB 2qzg chain A domain 1 Region: 25 - 59 Aligned: 35 Modelled: 35 Confidence: 52.3% Identity: 26% Fold: Bromodomain-like Superfamily: Ta0600-like Family: Ta0600-like Phyre2 PDB 3lvy chain B Region: 5 - 64 Aligned: 60 Modelled: 60 Confidence: 27.7% Identity: 18% PDB header:lyase Chain: B: PDB Molecule:carboxymuconolactone decarboxylase family; PDBTitle: crystal structure of carboxymuconolactone decarboxylase2 family protein smu.961 from streptococcus mutans Phyre2 PDB 1x3l chain A Region: 15 - 49 Aligned: 35 Modelled: 35 Confidence: 22.9% Identity: 26% PDB header:transferase Chain: A: PDB Molecule:hypothetical protein ph0495; PDBTitle: crystal structure of the ph0495 protein from pyrococccus horikoshii2 ot3 Phyre2 PDB 3ggz chain C Region: 1 - 34 Aligned: 34 Modelled: 34 Confidence: 18.1% Identity: 29% PDB header:protein transport, endocytosis Chain: C: PDB Molecule:increased sodium tolerance protein 1; PDBTitle: crystal structure of s.cerevisiae ist1 n-terminal domain in2 complex with did2 mim motif Phyre2 PDB 2rg8 chain A Region: 23 - 61 Aligned: 39 Modelled: 39 Confidence: 17.2% Identity: 31% PDB header:apoptosis, translation Chain: A: PDB Molecule:programmed cell death protein 4; PDBTitle: crystal structure of programmed for cell death 4 middle ma32 domain Phyre2 PDB 2kxh chain B Region: 18 - 39 Aligned: 22 Modelled: 22 Confidence: 12.7% Identity: 41% PDB header:protein binding Chain: B: PDB Molecule:peptide of far upstream element-binding protein 1; PDBTitle: solution structure of the first two rrm domains of fir in the complex2 with fbp nbox peptide Phyre2 PDB 2p02 chain A domain 2 Region: 14 - 38 Aligned: 25 Modelled: 25 Confidence: 12.6% Identity: 32% Fold: S-adenosylmethionine synthetase Superfamily: S-adenosylmethionine synthetase Family: S-adenosylmethionine synthetase Phyre2 PDB 1qm4 chain A domain 2 Region: 14 - 38 Aligned: 25 Modelled: 25 Confidence: 11.5% Identity: 32% Fold: S-adenosylmethionine synthetase Superfamily: S-adenosylmethionine synthetase Family: S-adenosylmethionine synthetase Phyre2 PDB 2ouw chain A domain 1 Region: 8 - 63 Aligned: 56 Modelled: 56 Confidence: 10.1% Identity: 20% Fold: AhpD-like Superfamily: AhpD-like Family: TTHA0727-like Phyre2 PDB 3fp5 chain A Region: 1 - 17 Aligned: 17 Modelled: 17 Confidence: 10.1% Identity: 18% PDB header:lipid binding protein Chain: A: PDB Molecule:acyl-coa binding protein; PDBTitle: crystal structure of acbp from moniliophthora perniciosa Phyre2 PDB 1mxa chain A domain 2 Region: 14 - 38 Aligned: 25 Modelled: 25 Confidence: 9.6% Identity: 28% Fold: S-adenosylmethionine synthetase Superfamily: S-adenosylmethionine synthetase Family: S-adenosylmethionine synthetase Phyre2 PDB 3c1l chain B Region: 20 - 64 Aligned: 45 Modelled: 45 Confidence: 9.2% Identity: 20% PDB header:oxidoreductase Chain: B: PDB Molecule:putative antioxidant defense protein mlr4105; PDBTitle: crystal structure of an antioxidant defense protein (mlr4105) from2 mesorhizobium loti maff303099 at 2.00 a resolution Phyre2 PDB 2j9w chain B Region: 5 - 53 Aligned: 49 Modelled: 49 Confidence: 8.0% Identity: 16% PDB header:protein transport Chain: B: PDB Molecule:vps28-prov protein; PDBTitle: structural insight into the escrt-i-ii link and its role in2 mvb trafficking Phyre2 PDB 1s5a chain A Region: 1 - 20 Aligned: 20 Modelled: 12 Confidence: 7.3% Identity: 40% Fold: Cystatin-like Superfamily: NTF2-like Family: PhzA/PhzB-like Phyre2 PDB 3ix6 chain B Region: 1 - 14 Aligned: 14 Modelled: 14 Confidence: 6.8% Identity: 21% PDB header:transferase Chain: B: PDB Molecule:thymidylate synthase; PDBTitle: crystal structure of thymidylate synthase thya from brucella2 melitensis Phyre2 PDB 2pfx chain A domain 1 Region: 20 - 64 Aligned: 45 Modelled: 45 Confidence: 5.9% Identity: 18% Fold: AhpD-like Superfamily: AhpD-like Family: Atu0492-like Phyre2 PDB 2cqu chain A Region: 1 - 21 Aligned: 21 Modelled: 21 Confidence: 5.7% Identity: 14% PDB header:isomerase Chain: A: PDB Molecule:peroxisomal d3,d2-enoyl-coa isomerase; PDBTitle: solution structure of rsgi ruh-045, a human acyl-coa2 binding protein Phyre2 PDB 2gy9 chain T domain 1 Region: 7 - 46 Aligned: 40 Modelled: 40 Confidence: 5.5% Identity: 25% Fold: Spectrin repeat-like Superfamily: Ribosomal protein S20 Family: Ribosomal protein S20 Phyre2 PDB 2w3c chain A Region: 30 - 59 Aligned: 30 Modelled: 30 Confidence: 5.4% Identity: 7% PDB header:transport protein Chain: A: PDB Molecule:general vesicular transport factor p115; PDBTitle: globular head region of the human general vesicular2 transport factor p115 Phyre2 1 d2qsba1 2 d2qzga1 3 c3lvyB_ 4 c1x3lA_ 5 c3ggzC_ 6 c2rg8A_ 7 c2kxhB_ 8 d2p02a2 9 d1qm4a2 10 d2ouwa1 11 c3fp5A_ 12 d1mxaa2 13 c3c1lB_ 14 c2j9wB_ 15 d1s5aa_ 16 c3ix6B_ 17 d2pfxa1 18 c2cquA_ 19 d2gy9t1 20 c2w3cA_ 21

Detailed template information

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

1 d2qsba1 57.9 26 Fold:Bromodomain-like Superfamily:Ta0600-like Family:Ta0600-like 2 d2qzga1 52.3 26 Fold:Bromodomain-like Superfamily:Ta0600-like Family:Ta0600-like 3 c3lvyB_ 27.7 18 PDB header:lyase Chain: B: PDB Molecule:carboxymuconolactone decarboxylase family; PDBTitle: crystal structure of carboxymuconolactone decarboxylase2 family protein smu.961 from streptococcus mutans 4 c1x3lA_ 22.9 26 PDB header:transferase Chain: A: PDB Molecule:hypothetical protein ph0495; PDBTitle: crystal structure of the ph0495 protein from pyrococccus horikoshii2 ot3 5 c3ggzC_ 18.1 29 PDB header:protein transport, endocytosis Chain: C: PDB Molecule:increased sodium tolerance protein 1; PDBTitle: crystal structure of s.cerevisiae ist1 n-terminal domain in2 complex with did2 mim motif 6 c2rg8A_ 17.2 31 PDB header:apoptosis, translation Chain: A: PDB Molecule:programmed cell death protein 4; PDBTitle: crystal structure of programmed for cell death 4 middle ma32 domain 7 c2kxhB_ 12.7 41 PDB header:protein binding Chain: B: PDB Molecule:peptide of far upstream element-binding protein 1; PDBTitle: solution structure of the first two rrm domains of fir in the complex2 with fbp nbox peptide 8 d2p02a2 12.6 32 Fold:S-adenosylmethionine synthetase Superfamily:S-adenosylmethionine synthetase Family:S-adenosylmethionine synthetase 9 d1qm4a2 11.5 32 Fold:S-adenosylmethionine synthetase Superfamily:S-adenosylmethionine synthetase Family:S-adenosylmethionine synthetase 10 d2ouwa1 10.1 20 Fold:AhpD-like Superfamily:AhpD-like Family:TTHA0727-like 11 c3fp5A_ 10.1 18 PDB header:lipid binding protein Chain: A: PDB Molecule:acyl-coa binding protein; PDBTitle: crystal structure of acbp from moniliophthora perniciosa 12 d1mxaa2 9.6 28 Fold:S-adenosylmethionine synthetase Superfamily:S-adenosylmethionine synthetase Family:S-adenosylmethionine synthetase 13 c3c1lB_ 9.2 20 PDB header:oxidoreductase Chain: B: PDB Molecule:putative antioxidant defense protein mlr4105; PDBTitle: crystal structure of an antioxidant defense protein (mlr4105) from2 mesorhizobium loti maff303099 at 2.00 a resolution 14 c2j9wB_ 8.0 16 PDB header:protein transport Chain: B: PDB Molecule:vps28-prov protein; PDBTitle: structural insight into the escrt-i-ii link and its role in2 mvb trafficking 15 d1s5aa_ 7.3 40 Fold:Cystatin-like Superfamily:NTF2-like Family:PhzA/PhzB-like 16 c3ix6B_ 6.8 21 PDB header:transferase Chain: B: PDB Molecule:thymidylate synthase; PDBTitle: crystal structure of thymidylate synthase thya from brucella2 melitensis 17 d2pfxa1 5.9 18 Fold:AhpD-like Superfamily:AhpD-like Family:Atu0492-like 18 c2cquA_ 5.7 14 PDB header:isomerase Chain: A: PDB Molecule:peroxisomal d3,d2-enoyl-coa isomerase; PDBTitle: solution structure of rsgi ruh-045, a human acyl-coa2 binding protein 19 d2gy9t1 5.5 25 Fold:Spectrin repeat-like Superfamily:Ribosomal protein S20 Family:Ribosomal protein S20 20 c2w3cA_ 5.4 7 PDB header:transport protein Chain: A: PDB Molecule:general vesicular transport factor p115; PDBTitle: globular head region of the human general vesicular2 transport factor p115 21 d1rr7a_ not modelled 5.2 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Middle operon regulator, Mor

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