Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	R	R	Y	S	S	A	T	I	T	L	V	I	L	F	C	R	R	P	H	C	R	K	I	S	V	R	Q	Y	Y	Q	K	R	V	I	F	Y	P	T	T	L	Q	R	T	A	C	K	K	C	L	F	L	M	R	D	I	I	I	S
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																																			?	?	?
Disorder confidence
		.
Sequence		S
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 2dlk chain A domain 1 Region: 15 - 30 Aligned: 16 Modelled: 16 Confidence: 12.7% Identity: 50% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 1liq chain A Region: 17 - 23 Aligned: 7 Modelled: 7 Confidence: 12.5% Identity: 71% PDB header:protein binding Chain: A: PDB Molecule:creb binding protein; PDBTitle: non-native solution structure of a fragment of the ch12 domain of cbp Phyre2 PDB 1si2 chain A Region: 24 - 34 Aligned: 11 Modelled: 11 Confidence: 10.6% Identity: 27% Fold: SH3-like barrel Superfamily: PAZ domain Family: PAZ domain Phyre2 PDB 2qsi chain B Region: 6 - 38 Aligned: 33 Modelled: 33 Confidence: 9.5% Identity: 15% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative hydrogenase expression/formation protein hupg; PDBTitle: crystal structure of putative hydrogenase expression/formation protein2 hupg from rhodopseudomonas palustris cga009 Phyre2 PDB 3o7x chain C Region: 23 - 34 Aligned: 12 Modelled: 12 Confidence: 7.6% Identity: 33% PDB header:rna binding protein Chain: C: PDB Molecule:piwi-like protein 2; PDBTitle: crystal structure of human hili paz domain Phyre2 PDB 1s0y chain B Region: 53 - 58 Aligned: 6 Modelled: 6 Confidence: 6.8% Identity: 67% Fold: Tautomerase/MIF Superfamily: Tautomerase/MIF Family: 4-oxalocrotonate tautomerase-like Phyre2 PDB 3ej9 chain D Region: 53 - 58 Aligned: 6 Modelled: 6 Confidence: 6.5% Identity: 67% PDB header:hydrolase Chain: D: PDB Molecule:beta-subunit of trans-3-chloroacrylic acid dehalogenase; PDBTitle: structural and mechanistic analysis of trans-3-chloroacrylic acid2 dehalogenase activity Phyre2 PDB 1dz1 chain A Region: 27 - 38 Aligned: 12 Modelled: 12 Confidence: 6.0% Identity: 25% Fold: SH3-like barrel Superfamily: Chromo domain-like Family: Chromo domain Phyre2 PDB 2xfm chain A Region: 23 - 34 Aligned: 12 Modelled: 12 Confidence: 5.9% Identity: 33% PDB header:rna/protein Chain: A: PDB Molecule:piwi-like protein 1; PDBTitle: complex structure of the miwi paz domain bound to methylated single2 stranded rna Phyre2 PDB 2zae chain B Region: 27 - 50 Aligned: 24 Modelled: 24 Confidence: 5.7% Identity: 25% PDB header:hydrolase Chain: B: PDB Molecule:ribonuclease p protein component 4; PDBTitle: crystal structure of protein ph1601p in complex with protein ph1771p2 of archaeal ribonuclease p from pyrococcus horikoshii ot3 Phyre2 PDB 1t2s chain A Region: 23 - 33 Aligned: 11 Modelled: 11 Confidence: 5.5% Identity: 18% Fold: SH3-like barrel Superfamily: PAZ domain Family: PAZ domain Phyre2 1 d2dlka1 2 c1liqA_ 3 d1si2a_ 4 c2qsiB_ 5 c3o7xC_ 6 d1s0yb_ 7 c3ej9D_ 8 d1dz1a_ 9 c2xfmA_ 10 c2zaeB_ 11 d1t2sa_

Detailed template information

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

1 d2dlka1 12.7 50 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 2 c1liqA_ 12.5 71 PDB header:protein binding Chain: A: PDB Molecule:creb binding protein; PDBTitle: non-native solution structure of a fragment of the ch12 domain of cbp 3 d1si2a_ 10.6 27 Fold:SH3-like barrel Superfamily:PAZ domain Family:PAZ domain 4 c2qsiB_ 9.5 15 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative hydrogenase expression/formation protein hupg; PDBTitle: crystal structure of putative hydrogenase expression/formation protein2 hupg from rhodopseudomonas palustris cga009 5 c3o7xC_ 7.6 33 PDB header:rna binding protein Chain: C: PDB Molecule:piwi-like protein 2; PDBTitle: crystal structure of human hili paz domain 6 d1s0yb_ 6.8 67 Fold:Tautomerase/MIF Superfamily:Tautomerase/MIF Family:4-oxalocrotonate tautomerase-like 7 c3ej9D_ 6.5 67 PDB header:hydrolase Chain: D: PDB Molecule:beta-subunit of trans-3-chloroacrylic acid dehalogenase; PDBTitle: structural and mechanistic analysis of trans-3-chloroacrylic acid2 dehalogenase activity 8 d1dz1a_ 6.0 25 Fold:SH3-like barrel Superfamily:Chromo domain-like Family:Chromo domain 9 c2xfmA_ 5.9 33 PDB header:rna/protein Chain: A: PDB Molecule:piwi-like protein 1; PDBTitle: complex structure of the miwi paz domain bound to methylated single2 stranded rna 10 c2zaeB_ 5.7 25 PDB header:hydrolase Chain: B: PDB Molecule:ribonuclease p protein component 4; PDBTitle: crystal structure of protein ph1601p in complex with protein ph1771p2 of archaeal ribonuclease p from pyrococcus horikoshii ot3 11 d1t2sa_ 5.5 18 Fold:SH3-like barrel Superfamily:PAZ domain Family:PAZ 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